Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies
Request successful!

  0%|          | 0/1674 [00:00<?, ?it/s]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  0%|          | 1/1674 [00:06<2:51:33,  6.15s/it]Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10035
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Waters Xevo TQ: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10062
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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22P11650015_OCTML_NEG.raw
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22P11650016_OCTML_POS.raw
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22P11650019_OCTML_NEG.raw
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22P11650019_OCTML_POS.raw
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22P11650020_OCTML_NEG.raw
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22P11650020_OCTML_POS.raw
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22P11650023_OCTML_NEG.raw
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22P11650023_OCTML_POS.raw
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22P11650024_OCTML_NEG.raw
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22P11650024_OCTML_POS.raw
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22P11650027_OCTML_NEG.raw
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22P11650028_OCTML_NEG.raw
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22P11650028_OCTML_POS.raw
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22P11650031_OCTML_NEG.raw
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22P11650032_OCTML_NEG.raw
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22P11650042_OCTML_NEG.raw
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22P11650043_OCTML_NEG.raw
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DB_OCTML_NEG_06.raw
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DB_OCTML_POS_01.raw
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DB_OCTML_POS_05.raw
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PRE_QC2_OCTML_NEG.raw
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PRE_QC_OCTML_POS_2.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  0%|          | 2/1674 [00:11<2:45:43,  5.95s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  0%|          | 3/1674 [00:17<2:35:03,  5.57s/it]
  0%|          | 4/1674 [00:19<1:59:53,  4.31s/it]
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  0%|          | 7/1674 [00:26<1:26:08,  3.10s/it]
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 94 rows!
Added 94 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10083
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
22P11650002_OCTML_NEG.raw
FILES
22P11650002_OCTML_POS.raw
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22P11650006_OCTML_NEG.raw
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22P11650006_OCTML_POS.raw
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22P11650010_OCTML_NEG.raw
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22P11650010_OCTML_POS.raw
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22P11650014_OCTML_NEG.raw
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22P11650014_OCTML_POS.raw
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22P11650018_OCTML_NEG.raw
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22P11650018_OCTML_POS.raw
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22P11650022_OCTML_NEG.raw
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22P11650022_OCTML_POS.raw
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22P11650026_OCTML_NEG.raw
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22P11650026_OCTML_POS.raw
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22P11650030_OCTML_NEG.raw
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22P11650030_OCTML_POS.raw
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22P11650034_OCTML_NEG.raw
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22P11650034_OCTML_POS.raw
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22P11650038_OCTML_NEG.raw
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22P11650038_OCTML_POS.raw
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22P11650041_OCTML_NEG.raw
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22P11650041_OCTML_POS.raw
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22P11650045_OCTML_NEG.raw
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22P11650045_OCTML_POS.raw
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BLANK_OCTML_NEG.raw
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DB_OCTML_POS_01.raw
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PRE_QC_OCTML_NEG.raw
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PRE_QC_OCTML_POS.raw
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QC_OCTML_NEG_06.raw
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QC_OCTML_NEG_14.raw
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QC_OCTML_NEG_MSMS1.raw
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QC_OCTML_NEG_MSMS4.raw
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QC_OCTML_NEG_MSMS5.raw
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QC_OCTML_POS_06.raw
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QC_OCTML_POS_09.raw
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QC_OCTML_POS_10.raw
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QC_OCTML_POS_11.raw
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QC_OCTML_POS_12.raw
FILES
QC_OCTML_POS_13.raw
FILES
QC_OCTML_POS_14.raw
FILES
QC_OCTML_POS_MSMS1.raw
FILES
QC_OCTML_POS_MSMS2.raw
FILES
QC_OCTML_POS_MSMS3.raw
FILES
QC_OCTML_POS_MSMS4.raw
FILES
QC_OCTML_POS_MSMS5.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 68 rows!
Added 68 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1014
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS116
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1015
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1024
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
ChromatographyAndPhase:
  : missing value
FILES
KN210_1019_ppl_neg_400k.raw
FILES
KN210_1019_ppl_neg_400k.raw
FILES
KN210_1046_ppl_neg_400k_run2.raw
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KN210_1046_ppl_neg_400k_run2.raw
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KN210_1050_ppl_neg_400k.raw
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KN210_1050_ppl_neg_400k.raw
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KN210_12_ppl_neg_400k_rerun.raw
FILES
KN210_12_ppl_neg_400k_rerun.raw
FILES
KN210_265_ppl_neg_400k.raw
FILES
KN210_265_ppl_neg_400k.raw
FILES
KN210_27_ppl_neg_400k.raw
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KN210_27_ppl_neg_400k.raw
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KN210_330_ppl_neg_400k_rerun.raw
FILES
KN210_330_ppl_neg_400k_rerun.raw
FILES
KN210_51_neg_400k_rerun.raw
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KN210_51_neg_400k_rerun.raw
FILES
KN210_631_ppl_neg_400k.raw
FILES
KN210_631_ppl_neg_400k.raw
FILES
KN210_682_ppl_neg_400k_rerun.raw
FILES
KN210_682_ppl_neg_400k_rerun.raw
FILES
KN210_77_ppl_neg_400k_rerun.raw
FILES
KN210_77_ppl_neg_400k_rerun.raw
FILES
KN210_964_ppl_neg_400k_run2.raw
FILES
KN210_964_ppl_neg_400k_run2.raw
FILES
KN210_995_ppl_neg_400k.raw
FILES
KN210_995_ppl_neg_400k.raw
FILES
kn210_104_ppl_neg_400k_replicate.raw
FILES
kn210_104_ppl_neg_400k_replicate.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  0%|          | 8/1674 [00:31<1:45:13,  3.79s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
kn210_262_ppl_neg_400k.raw
FILES
kn210_262_ppl_neg_400k.raw
FILES
kn210_273_ppl_neg_400k.raw
FILES
kn210_273_ppl_neg_400k.raw
FILES
kn210_343_ppl_neg_400k.raw
FILES
kn210_343_ppl_neg_400k.raw
FILES
kn210_372_ppl_neg_400k.raw
FILES
kn210_372_ppl_neg_400k.raw
FILES
kn210_38_ppl_neg_400k.raw
FILES
kn210_38_ppl_neg_400k.raw
FILES
kn210_46_ppl_neg_400k.raw
FILES
kn210_46_ppl_neg_400k.raw
FILES
kn210_621_ppl_neg_400k.raw
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kn210_621_ppl_neg_400k.raw
FILES
kn210_671_ppl_neg_400k.raw
FILES
kn210_671_ppl_neg_400k.raw
FILES
kn210_975_ppl_neg_400k.raw
FILES
kn210_975_ppl_neg_400k.raw
FILES
kn210_979_ppl_neg_400k.raw
FILES
kn210_979_ppl_neg_400k.raw
FILES
kn210_999_ppl_neg_400k.raw
FILES
kn210_999_ppl_neg_400k.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 50 rows!
Added 25 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10284
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
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FILES
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FILES
BMSC-0Gy-2.raw
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FILES
BMSC-0Gy-4.raw
FILES
BMSC-4Gy-1.raw
FILES
BMSC-4Gy-2.raw
FILES
BMSC-4Gy-3.raw
FILES
BMSC-4Gy-4.raw
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QC-1.raw
FILES
QC-2.raw
FILES
QC-3.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 11 rows!
Added 11 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS345
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
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  electron ionization (positive): missing value
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  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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LBNL_DietX_CC042_F_B.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  1%|          | 10/1674 [00:44<2:30:47,  5.44s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  1%|          | 11/1674 [00:48<2:17:53,  4.97s/it]
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FILES
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UNC_CC004_F_06.CDF
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UNC_CC004_M_05.CDF
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UNC_DietX_CC061_M_A2.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Food
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IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 9
Returning 120 rows!
Added 120 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS359
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
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FILES
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40min_tea_rep2.mzML
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40min_tea_rep3.mzML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Vaiant
IGNORED:  Is Fluid
IGNORED:  Samples_treatment
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Scan m/z range
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Number of rows removed due to not enough metadata: 0
Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS367
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS375/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  1%|          | 13/1674 [00:54<1:51:42,  4.04s/it]
  1%|          | 14/1674 [00:55<1:29:31,  3.24s/it]
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Assay_Term Source REF.1
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Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS382
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9737
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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UBERONBodyPartName:
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ENVOEnvironmentBiome:
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FILES
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HFX13_CN2_FZTM230061701-1A.mzML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Samples_Source Name
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  1%|          | 15/1674 [01:01<1:45:40,  3.82s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  1%|          | 16/1674 [01:05<1:50:21,  3.99s/it]
  1%|          | 17/1674 [01:07<1:36:56,  3.51s/it]
  1%|          | 18/1674 [01:09<1:18:50,  2.86s/it]
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS472
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Q-Tof Premier: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
K_1_48_#1_neg_112.raw
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K_1_48_#2_neg_113.raw
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K_1_48_#2_pos_106.raw
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 34 rows!
Added 34 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1033
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS589
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1040
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
FILES
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  row_id
Number of rows removed due to not enough metadata: 978
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS563
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS700
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
  AB SCIEX TripleTOF 5600+: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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20161209 whq 107.CDF
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20161209 whq 113.CDF
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20161209 whq 114.CDF
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20161209 whq 121.CDF
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20161209 whq 126.CDF
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20161209 whq 140.CDF
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20161209 whq 143.CDF
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20161209 whq 144.CDF
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Unit.5
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_ESRD status
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Urea
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_eGFR
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  keep/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  1%|▏         | 21/1674 [01:54<5:08:11, 11.19s/it]
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Unit.3
IGNORED:  Samples_Creatinine
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Unit.4
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Samples_Dialysis frequency
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_BMI
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 865 rows!
Added 865 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS702
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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QXA07POSEAR20200401_UNPA0420PHML_HUMAN_MUCOSAL_EPITHELIA5_18.mzML
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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FILES
Method 1
QXA07POSEAR20200401_UNPA0420PHML_HUMAN_MUCOSAL_EPITHELIA6_20.mzML
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Method 1
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FILES
Method 1
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Method 1
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Method 1
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Method 1
QXA07POSEAR20200401_UNPA0420PHML_HUMAN_MUCOSAL_EPITHELIA6_33.mzML
FILES
Method 1
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Method 4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.13
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IGNORED:  Samples_Term Accession Number.4
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Number of rows removed due to not enough metadata: 0
Returning 500 rows!
Added 500 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS103
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
  Agilent 6490 Triple Quadrupole: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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PIO_18MO_830049_QQQ.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9823
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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  QTRAP5500: missing value
  QTRAP6500+: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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Number of rows removed due to not enough metadata: 6
Returning 66 rows!
Added 66 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS859
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1041
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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20161020_Hypotop_203.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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20161020_Hypotop_262.mzXML
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20161020_Hypotop_267.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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Number of rows removed due to not enough metadata: 0
Returning 256 rows!
Added 256 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1187
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 7200 Q-TOF: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
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170921_42.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Is Multicellular
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Number of rows removed due to not enough metadata: 23
Returning 120 rows!
Added 120 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1044
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1045
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS105
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Agilent 5975C MSD: missing value
  LECO Pegasus: missing value
IonizationSourceAndPolarity:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  2%|▏         | 30/1674 [02:55<2:41:29,  5.89s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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GC-qMS_30.CDF
FILES
GC-qMS_31.CDF
FILES
GC-qMS_32.CDF
FILES
GC-qMS_33.CDF
FILES
GC-qMS_34.CDF
FILES
GC-qMS_35.CDF
FILES
GC-qMS_36.CDF
FILES
GC-qMS_37.CDF
FILES
GC-qMS_38.CDF
FILES
GC-qMS_39.CDF
FILES
GC-qMS_40.CDF
FILES
GC-qMS_41.CDF
FILES
GC-qMS_42.CDF
FILES
GC-qMS_43.CDF
FILES
GC-qMS_44.CDF
FILES
GC-qMS_45.CDF
FILES
GC-qMS_46.CDF
FILES
GC-qMS_47.CDF
FILES
GC-qMS_48.CDF
FILES
GC-qMS_49.CDF
FILES
GC-qMS_50.CDF
FILES
GC-qMS_51.CDF
FILES
GC-qMS_52.CDF
FILES
GC-qMS_53.CDF
FILES
GC-qMS_54.CDF
FILES
GC-qMS_55.CDF
FILES
GC-qMS_56.CDF
FILES
GC-qMS_57.CDF
FILES
GC-qMS_58.CDF
FILES
GC-qMS_59.CDF
FILES
GC-qMS_60.CDF
FILES
GC-qMS_61.CDF
FILES
GC-qMS_62.CDF
FILES
GC-qMS_63.CDF
FILES
GC-qMS_64.CDF
FILES
GC-qMS_65.CDF
FILES
GC-qMS_66.CDF
FILES
GC-qMS_67.CDF
FILES
GC-qMS_68.CDF
FILES
GC-qMS_69.CDF
FILES
GC-qMS_70.CDF
FILES
GC-qMS_71.CDF
FILES
GC-qMS_72.CDF
FILES
GC-qMS_73.CDF
FILES
GC-qMS_74.CDF
FILES
GC-qMS_75.CDF
FILES
GC-qMS_76.CDF
FILES
GC-qMS_77.CDF
FILES
GC-qMS_78.CDF
FILES
GC-qMS_79.CDF
FILES
GC-qMS_80.CDF
FILES
GC-qMS_81.CDF
FILES
GC-qMS_82.CDF
FILES
GC-qMS_83.CDF
FILES
GC-qMS_84.CDF
FILES
GC-qMS_85.CDF
FILES
GC-qMS_86.CDF
FILES
GC-qMS_87.CDF
FILES
GC-qMS_88.CDF
FILES
GC-qMS_89.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Batch
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 267 rows!
Added 267 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1334
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6545 Q-TOF: missing value
FILES
STD_neg_MSMS_1min0069.mzML
FILES
STD_neg_MSMS_1min0071.mzML
FILES
STD_neg_MSMS_1min0072.mzML
FILES
STD_neg_MSMS_1min0077.mzML
FILES
STD_neg_MSMS_1min0079.mzML
FILES
STD_neg_MSMS_1min0081.mzML
FILES
STD_neg_MSMS_1min0082.mzML
FILES
STD_neg_MSMS_1min0085.mzML
FILES
STD_neg_MSMS_1min0088.mzML
FILES
STD_neg_MSMS_1min0089.mzML
FILES
STD_neg_MSMS_1min0095.mzML
FILES
STD_neg_MSMS_1min0099.mzML
FILES
STD_neg_MSMS_1min0101.mzML
FILES
STD_neg_MSMS_1min0104.mzML
FILES
STD_neg_MSMS_1min0108.mzML
FILES
STD_neg_MSMS_1min0112.mzML
FILES
STD_neg_MSMS_1min0116.mzML
FILES
STD_neg_MSMS_1min0118.mzML
FILES
STD_neg_MSMS_1min0120.mzML
FILES
STD_neg_MSMS_1min0122.mzML
FILES
STD_neg_MSMS_1min0124.mzML
FILES
STD_neg_MSMS_1min0128.mzML
FILES
STD_neg_MSMS_1min0130.mzML
FILES
STD_neg_MSMS_1min0132.mzML
FILES
STD_neg_MSMS_1min0134.mzML
FILES
STD_neg_MSMS_1min0137.mzML
FILES
STD_neg_MSMS_1min0139.mzML
FILES
STD_neg_MSMS_1min0145.mzML
FILES
STD_neg_MSMS_1min0151.mzML
FILES
STD_neg_MSMS_1min0152.mzML
FILES
STD_neg_MSMS_1min0155.mzML
FILES
STD_neg_MSMS_1min0164.mzML
FILES
STD_neg_MSMS_1min0165.mzML
FILES
STD_neg_MSMS_1min0194.mzML
FILES
STD_neg_MSMS_1min0196.mzML
FILES
STD_neg_MSMS_1min0197.mzML
FILES
STD_neg_MSMS_1min0199.mzML
FILES
STD_neg_MSMS_1min0201.mzML
FILES
STD_neg_MSMS_1min0203.mzML
FILES
STD_neg_MSMS_1min0205.mzML
FILES
STD_neg_MSMS_1min0208.mzML
FILES
STD_neg_MSMS_1min0210.mzML
FILES
STD_neg_MSMS_1min0212.mzML
FILES
STD_neg_MSMS_1min0215.mzML
FILES
STD_neg_MSMS_1min0217.mzML
FILES
STD_neg_MSMS_1min0219.mzML
FILES
STD_neg_MSMS_1min0220.mzML
FILES
STD_neg_MSMS_1min0222.mzML
FILES
STD_neg_MSMS_1min0224.mzML
FILES
STD_neg_MSMS_1min0227.mzML
FILES
STD_neg_MSMS_1min0230.mzML
FILES
STD_neg_MSMS_1min0232.mzML
FILES
STD_neg_MSMS_1min0235.mzML
FILES
STD_neg_MSMS_1min0239.mzML
FILES
STD_neg_MSMS_1min0241.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_DI Instrument
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Lipid
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 55
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1388
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1391
Request successful!
  2%|▏         | 33/1674 [03:03<1:39:14,  3.63s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  2%|▏         | 34/1674 [03:11<2:11:42,  4.82s/it]
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1572
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Bruker impact II UHR-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
HILIC(-)_Blank_DDA.mzXML
FILES
HILIC(-)_Blank_DIA.mzXML
FILES
HILIC(-)_Blank_FullScan2Hz.mzXML
FILES
HILIC(-)_StdMixHigh_DDA1.mzXML
FILES
HILIC(-)_StdMixHigh_DDA2.mzXML
FILES
HILIC(-)_StdMixHigh_DDA3.mzXML
FILES
HILIC(-)_StdMixHigh_DIA1.mzXML
FILES
HILIC(-)_StdMixHigh_DIA2.mzXML
FILES
HILIC(-)_StdMixHigh_DIA3.mzXML
FILES
HILIC(-)_StdMixHigh_Full2Hz_1.mzXML
FILES
HILIC(-)_StdMixHigh_Full2Hz_2.mzXML
FILES
HILIC(-)_StdMixHigh_Full2Hz_3.mzXML
FILES
HILIC(-)_StdMixLow_DDA1.mzXML
FILES
HILIC(-)_StdMixLow_DDA2.mzXML
FILES
HILIC(-)_StdMixLow_DDA3.mzXML
FILES
HILIC(-)_StdMixLow_DIA1.mzXML
FILES
HILIC(-)_StdMixLow_DIA2.mzXML
FILES
HILIC(-)_StdMixLow_DIA3.mzXML
FILES
HILIC(-)_StdMixLow_Full2Hz_1.mzXML
FILES
HILIC(-)_StdMixLow_Full2Hz_2.mzXML
FILES
HILIC(-)_StdMixLow_Full2Hz_3.mzXML
FILES
HILIC(-)_UrineHigh_DDA1.mzXML
FILES
HILIC(-)_UrineHigh_DDA2.mzXML
FILES
HILIC(-)_UrineHigh_DDA3.mzXML
FILES
HILIC(-)_UrineHigh_DIA1.mzXML
FILES
HILIC(-)_UrineHigh_DIA2.mzXML
FILES
HILIC(-)_UrineHigh_DIA3.mzXML
FILES
HILIC(-)_UrineHigh_Full2Hz_1.mzXML
FILES
HILIC(-)_UrineHigh_Full2Hz_2.mzXML
FILES
HILIC(-)_UrineHigh_Full2Hz_3.mzXML
FILES
HILIC(-)_UrineLow_DDA1.mzXML
FILES
HILIC(-)_UrineLow_DDA2.mzXML
FILES
HILIC(-)_UrineLow_DDA3.mzXML
FILES
HILIC(-)_UrineLow_DIA1.mzXML
FILES
HILIC(-)_UrineLow_DIA2.mzXML
FILES
HILIC(-)_UrineLow_DIA3.mzXML
FILES
HILIC(-)_UrineLow_Full2Hz_1.mzXML
FILES
HILIC(-)_UrineLow_Full2Hz_2.mzXML
FILES
HILIC(-)_UrineLow_Full2Hz_3.mzXML
FILES
RP(+)_Blank_DDA.mzXML
FILES
RP(+)_Blank_DIA.mzXML
FILES
RP(+)_Blank_FullScan2Hz.mzXML
FILES
RP(+)_StdMixHigh_DDA1.mzXML
FILES
RP(+)_StdMixHigh_DDA2.mzXML
FILES
RP(+)_StdMixHigh_DDA3.mzXML
FILES
RP(+)_StdMixHigh_DIA1.mzXML
FILES
RP(+)_StdMixHigh_DIA2.mzXML
FILES
RP(+)_StdMixHigh_DIA3.mzXML
FILES
RP(+)_StdMixHigh_Full2Hz_1.mzXML
FILES
RP(+)_StdMixHigh_Full2Hz_2.mzXML
FILES
RP(+)_StdMixHigh_Full2Hz_3.mzXML
FILES
RP(+)_StdMixLow_DDA1.mzXML
FILES
RP(+)_StdMixLow_DDA2.mzXML
FILES
RP(+)_StdMixLow_DDA3.mzXML
FILES
RP(+)_StdMixLow_DIA1.mzXML
FILES
RP(+)_StdMixLow_DIA2.mzXML
FILES
RP(+)_StdMixLow_DIA3.mzXML
FILES
RP(+)_StdMixLow_Full2Hz_1.mzXML
FILES
RP(+)_StdMixLow_Full2Hz_2.mzXML
FILES
RP(+)_StdMixLow_Full2Hz_3.mzXML
FILES
RP(+)_UrineHigh_DDA1.mzXML
FILES
RP(+)_UrineHigh_DDA2.mzXML
FILES
RP(+)_UrineHigh_DDA3.mzXML
FILES
RP(+)_UrineHigh_DIA1.mzXML
FILES
RP(+)_UrineHigh_DIA2.mzXML
FILES
RP(+)_UrineHigh_DIA3.mzXML
FILES
RP(+)_UrineHigh_Full2Hz_1.mzXML
FILES
RP(+)_UrineHigh_Full2Hz_2.mzXML
FILES
RP(+)_UrineHigh_Full2Hz_3.mzXML
FILES
RP(+)_UrineLow_DDA1.mzXML
FILES
RP(+)_UrineLow_DDA2.mzXML
FILES
RP(+)_UrineLow_DDA3.mzXML
FILES
RP(+)_UrineLow_DIA1.mzXML
FILES
RP(+)_UrineLow_DIA2.mzXML
FILES
RP(+)_UrineLow_DIA3.mzXML
FILES
RP(+)_UrineLow_Full2Hz_1.mzXML
FILES
RP(+)_UrineLow_Full2Hz_2.mzXML
FILES
RP(+)_UrineLow_Full2Hz_3.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Homo sapiens
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Data acquisition mode
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.6
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Dilution
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 36
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1714
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker maXis UHR-ToF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
10_BA1_01_27125.d.mzXML
FILES
11_BA2_01_27142.d.mzXML
FILES
12_BA3_01_27138.d.mzXML
FILES
13_BA4_01_27186.d.mzXML
FILES
14_BA5_01_27168.d.mzXML
FILES
15_BA6_01_27135.d.mzXML
FILES
16_BA7_01_27214.d.mzXML
FILES
17_BA8_01_27119.d.mzXML
FILES
18_BB1_01_27211.d.mzXML
FILES
2-10_GA1_01_27205.d.mzXML
FILES
2-11_GA2_01_27120.d.mzXML
FILES
2-12_GA3_01_27181.d.mzXML
FILES
2-13_GA4_01_27176.d.mzXML
FILES
2-14_GA5_01_27212.d.mzXML
FILES
2-15_GA6_01_27128.d.mzXML
FILES
2-16_GA7_01_27188.d.mzXML
FILES
2-17_GA8_01_27183.d.mzXML
FILES
2-18_GB1_01_27171.d.mzXML
FILES
2-20_GB2_01_27221.d.mzXML
FILES
2-21_GB3_01_27137.d.mzXML
FILES
2-22_GB4_01_27222.d.mzXML
FILES
2-23_GB5_01_27180.d.mzXML
FILES
2-24_GB6_01_27204.d.mzXML
FILES
2-25_GB7_01_27223.d.mzXML
FILES
2-26_GB8_01_27108.d.mzXML
FILES
2-27_GC1_01_27197.d.mzXML
FILES
2-28_GC2_01_27189.d.mzXML
FILES
2-30_GC3_01_27174.d.mzXML
FILES
2-31_GC4_01_27102.d.mzXML
FILES
2-32_GC5_01_27121.d.mzXML
FILES
2-33_GC6_01_27182.d.mzXML
FILES
2-34_GC7_01_27185.d.mzXML
FILES
2-35_GC8_01_27172.d.mzXML
FILES
2-36_GD1_01_27218.d.mzXML
FILES
2-37_GD2_01_27114.d.mzXML
FILES
2-38_GD3_01_27206.d.mzXML
FILES
20_BB2_01_27156.d.mzXML
FILES
21_BB3_01_27187.d.mzXML
FILES
22_BB4_01_27191.d.mzXML
FILES
23_BB5_01_27132.d.mzXML
FILES
24_BB6_01_27144.d.mzXML
FILES
25_BB7_01_27167.d.mzXML
FILES
26_BB8_01_27140.d.mzXML
FILES
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3-10_RA3_01_27202.d.mzXML
FILES
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3-12_RA5_01_27217.d.mzXML
FILES
3-13_RA6_01_27103.d.mzXML
FILES
3-14_RA7_01_27184.d.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  2%|▏         | 35/1674 [03:16<2:15:07,  4.95s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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FILES
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FILES
3-17_RB2_01_27117.d.mzXML
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3-18_RB3_01_27179.d.mzXML
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3-20_RB4_01_27200.d.mzXML
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3-21_RB5_01_27201.d.mzXML
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3-22_RB6_01_27207.d.mzXML
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3-23_RB7_01_27152.d.mzXML
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3-25_RC1_01_27219.d.mzXML
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3-26_RC2_01_27199.d.mzXML
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3-27_RC3_01_27166.d.mzXML
FILES
3-28_RC4_01_27111.d.mzXML
FILES
3-30_RC5_01_27145.d.mzXML
FILES
3-31_RC6_01_27123.d.mzXML
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3-32_RC7_01_27126.d.mzXML
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3-33_RC8_01_27225.d.mzXML
FILES
3-34_RD1_01_27109.d.mzXML
FILES
3-35_RD2_01_27131.d.mzXML
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3-36_RD3_01_27139.d.mzXML
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3-37_RD4_01_27148.d.mzXML
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3-38_RD5_01_27154.d.mzXML
FILES
30_BC3_01_27105.d.mzXML
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31_BC4_01_27130.d.mzXML
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32_BC5_01_27146.d.mzXML
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33_BC6_01_27208.d.mzXML
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34_BC7_01_27216.d.mzXML
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38_BD3_01_27107.d.mzXML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 81 rows!
Added 81 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1715
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Blank_1.mzXML
FILES
Blank_2.mzXML
FILES
Blank_3.mzXML
FILES
Blank_4.mzXML
FILES
FeInt_T1_B1.mzXML
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FILES
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FILES
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FILES
Stnd-500nMb.mzXML
FILES
Stnd-7500nMb.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_13C source
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_13C incubation time
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 28 rows!
Added 28 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1748
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1750
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
191004-POS-001-Blank.raw
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191004-POS-027-CS5082.raw
FILES
191004-POS-028-CS5110.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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FILES
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FILES
200207-NEG-011-MSMS-Vip47.raw
FILES
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FILES
200207-POS-007-MSMS-hVIP.raw
FILES
200207-POS-008-MSMS-hVIP.raw
FILES
200207-POS-017-MSMS-Vip21.raw
FILES
200207-POS-018-MSMS-Vip21.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 126 rows!
Added 126 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1792
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 80
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1819
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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FILES
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IGNORED:  Assay_Guard column/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.2
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Number of rows removed due to not enough metadata: 0
Returning 34 rows!
Added 34 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1822
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
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FILES
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Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1875
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
BLK.raw
FILES
PBC001.raw
FILES
PBC002.raw
FILES
PBC003.raw
FILES
PBC004.raw
FILES
PBC005.raw
FILES
PBC006.raw
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PBC007.raw
FILES
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PBC011.raw
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PBC015.raw
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PBC016.raw
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PBC017.raw
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PBC019.raw
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FILES
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PBC026.raw
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PBC027.raw
FILES
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PBC029.raw
FILES
PBC030.raw
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PBL001_3.raw
FILES
PBL002.raw
FILES
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PBL004.raw
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PBL007.raw
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PBL017.raw
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PBL018.raw
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PBL019.raw
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  3%|▎         | 42/1674 [03:51<2:32:20,  5.60s/it]
  3%|▎         | 43/1674 [03:53<2:00:49,  4.44s/it]
IGNORED:  Samples_Term Accession Number.3
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Number of rows removed due to not enough metadata: 1
Returning 100 rows!
Added 100 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1898
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1968
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Bruker maXis impact UHR-QTOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Sample Name.1
IGNORED:  Samples_Agricultural Experimental Plot
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
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IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Diversity
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Harvest Time
IGNORED:  Samples_Local Diversity
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Biospecimen Type
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 48
Returning 380 rows!
Added 380 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2021
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C inert XL MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Supernatant
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IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 777
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2085
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_03.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_04.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_05.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_06.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_07.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_08.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_10.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_11.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_12.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_13.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_14.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_15.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_17.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_18.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_19.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_20.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_21.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_23.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_24.mzML
FILES
19403 SSID Data MZML Liver
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_LIVER_26.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_03.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_04.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_05.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_06.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_07.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_08.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_10.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_11.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_12.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_13.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_14.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_15.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_17.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_18.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_19.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_20.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_21.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_23.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_24.mzML
FILES
19403 SSID Data MZML Liver
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_LIVER_26.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_03.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_04.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_05.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_06.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_07.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_08.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_10.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_11.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_12.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_13.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_14.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_15.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_17.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_18.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_19.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_20.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_21.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_23.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_24.mzML
FILES
19403 SSID Data MZML Liver
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_LIVER_26.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_03.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_04.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_05.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_06.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_07.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_08.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_10.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_11.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_12.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_13.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_14.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_15.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_17.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_18.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_19.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_20.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_21.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_23.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_24.mzML
FILES
19403 SSID Data MZML Liver
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_LIVER_RERUN_26.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_03.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_04.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_05.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_06.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_07.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_08.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_10.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_11.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_12.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_13.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_14.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_15.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_17.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_18.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_19.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_20.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_21.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_23.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_24.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_EPI_26.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_03.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_04.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_05.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_06.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_07.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_08.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_10.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_11.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_12.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_13.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_14.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_15.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_17.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_18.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_19.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_20.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_21.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_23.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_24.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_EPI_26.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_03.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_04.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_05.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_06.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_07.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_08.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_10.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_11.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_12.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_13.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_14.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_15.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_17.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_18.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_19.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_20.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_21.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_23.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_24.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_EPI_26.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_03.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_04.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_05.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_06.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_07.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_08.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_10.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_11.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_12.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_13.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_14.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_15.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_17.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_18.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_19.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_20.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_21.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_23.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_24.mzML
FILES
19404 SSID Data MZML Epididymal Fat
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_FAT_EPI_26.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_03.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_04.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_05.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_06.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_07.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_08.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_10.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_11.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_12.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_13.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_14.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_15.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_17.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_18.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_19.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_20.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_21.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_23.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_24.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_25.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_FAT_VISC_26.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_03.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_04.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_05.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_06.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_07.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_08.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_10.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_11.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_12.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_13.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_14.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_15.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_17.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_18.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_19.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_20.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_21.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_23.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_24.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_25.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_FAT_VISC_26.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_03.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_04.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_05.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_06.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_07.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_08.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_10.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_11.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_12.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_13.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_14.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_15.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_17.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_18.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_19.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_20.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_21.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_23.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_24.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_25.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_FAT_VISC_26.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_03.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_04.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_05.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_06.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_07.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_08.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_10.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_11.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_12.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_13.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_14.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_15.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_17.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_18.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_19.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_20.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_21.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_23.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_24.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_25.mzML
FILES
19405 SSID Data MZML Visceral Fat
Method 4
QXA16POL20181018_NIAG0218ML_MOUSE_FAT_VISC_RERUN_26.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_03.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_04.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_05.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_06.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_08.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_09.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_10.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_11.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_12.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_13.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_15.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_16.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_17.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_18.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_19.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_21.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_22.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_23.mzML
FILES
19406 SSID Data MZML Serum
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_SERUM_24.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_03.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_04.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_05.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_06.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_08.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_09.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_10.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_11.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_12.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_13.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_15.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_16.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_17.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_18.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_19.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_21.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_22.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_23.mzML
FILES
19406 SSID Data MZML Serum
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_SERUM_24.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_03.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_04.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_05.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_06.mzML
FILES
19406 SSID Data MZML Serum
Method 3
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FILES
19406 SSID Data MZML Serum
Method 3
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FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_10.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_11.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_12.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_13.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_15.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_16.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_17.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_18.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_19.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_21.mzML
FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_22.mzML
FILES
19406 SSID Data MZML Serum
Method 3
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FILES
19406 SSID Data MZML Serum
Method 3
QXA14NEG20181012_NIAG0218ML_MOUSE_SERUM_24.mzML
FILES
19406 SSID Data MZML Serum
Method 4
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FILES
19406 SSID Data MZML Serum
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_SERUM_04.mzML
FILES
19406 SSID Data MZML Serum
Method 4
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FILES
19406 SSID Data MZML Serum
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_SERUM_06.mzML
FILES
19406 SSID Data MZML Serum
Method 4
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FILES
19406 SSID Data MZML Serum
Method 4
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FILES
19406 SSID Data MZML Serum
Method 4
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FILES
19406 SSID Data MZML Serum
Method 4
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19406 SSID Data MZML Serum
Method 4
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19406 SSID Data MZML Serum
Method 4
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19406 SSID Data MZML Serum
Method 4
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19406 SSID Data MZML Serum
Method 4
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FILES
19406 SSID Data MZML Serum
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_SERUM_17.mzML
FILES
19406 SSID Data MZML Serum
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_SERUM_18.mzML
FILES
19406 SSID Data MZML Serum
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_SERUM_19.mzML
FILES
19406 SSID Data MZML Serum
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_SERUM_21.mzML
FILES
19406 SSID Data MZML Serum
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_SERUM_22.mzML
FILES
19406 SSID Data MZML Serum
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_SERUM_23.mzML
FILES
19406 SSID Data MZML Serum
Method 4
QXA16POL20181012_NIAG0218ML_MOUSE_SERUM_24.mzML
FILES
19407 SSID Data MZML Quadriceps
Method 1
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19407 SSID Data MZML Quadriceps
Method 1
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19407 SSID Data MZML Quadriceps
Method 1
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19407 SSID Data MZML Quadriceps
Method 1
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FILES
19407 SSID Data MZML Quadriceps
Method 1
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FILES
19407 SSID Data MZML Quadriceps
Method 1
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FILES
19407 SSID Data MZML Quadriceps
Method 1
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FILES
19407 SSID Data MZML Quadriceps
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_UNKNOWN_11.mzML
FILES
19407 SSID Data MZML Quadriceps
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_UNKNOWN_12.mzML
FILES
19407 SSID Data MZML Quadriceps
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_UNKNOWN_13.mzML
FILES
19407 SSID Data MZML Quadriceps
Method 1
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FILES
19407 SSID Data MZML Quadriceps
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_UNKNOWN_15.mzML
FILES
19407 SSID Data MZML Quadriceps
Method 1
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19407 SSID Data MZML Quadriceps
Method 1
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19407 SSID Data MZML Quadriceps
Method 1
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19407 SSID Data MZML Quadriceps
Method 1
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19407 SSID Data MZML Quadriceps
Method 1
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19407 SSID Data MZML Quadriceps
Method 1
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19407 SSID Data MZML Quadriceps
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_UNKNOWN_24.mzML
FILES
19407 SSID Data MZML Quadriceps
Method 1
QXA15POSEAR20181012_NIAG0218ML_MOUSE_UNKNOWN_26.mzML
FILES
19407 SSID Data MZML Quadriceps
Method 2
QXA15POSLAT20181012_NIAG0218ML_MOUSE_UNKNOWN_03.mzML
FILES
19407 SSID Data MZML Quadriceps
Method 2
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FILES
19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
Method 2
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FILES
19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
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QXA15POSLAT20181012_NIAG0218ML_MOUSE_UNKNOWN_12.mzML
FILES
19407 SSID Data MZML Quadriceps
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QXA15POSLAT20181012_NIAG0218ML_MOUSE_UNKNOWN_13.mzML
FILES
19407 SSID Data MZML Quadriceps
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QXA15POSLAT20181012_NIAG0218ML_MOUSE_UNKNOWN_14.mzML
FILES
19407 SSID Data MZML Quadriceps
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QXA15POSLAT20181012_NIAG0218ML_MOUSE_UNKNOWN_15.mzML
FILES
19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
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FILES
19407 SSID Data MZML Quadriceps
Method 3
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
Method 4
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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19407 SSID Data MZML Quadriceps
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IGNORED:  Assay_Unit/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  3%|▎         | 46/1674 [04:47<5:58:52, 13.23s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 400 rows!
Added 400 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2119
Request successful!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2159
Request successful!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  3%|▎         | 48/1674 [04:56<3:56:32,  8.73s/it]
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Returning 47 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2295
Request successful!
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 2
Returning 224 rows!
Added 224 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2372
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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UBERONBodyPartName:
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 51
Returning 164 rows!
Added 164 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2532
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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Country: ADDED!
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qiita_sample_name: ADDED!
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  Waters Q-Tof Premier: missing value
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160915_028P01.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 1
Returning 84 rows!
Added 84 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2587
Request successful!
SampleCollectionMethod: ADDED!
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  3%|▎         | 52/1674 [05:37<4:32:33, 10.08s/it]
  3%|▎         | 53/1674 [05:38<3:20:02,  7.40s/it]
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IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Samples_Term Source REF.9
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Market class
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Brix value
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Pungency
IGNORED:  extension
IGNORED:  Assay_DI Instrument
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Cultivar
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Colour
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 424 rows!
Added 424 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2671
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2700
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker compact: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Inoculation
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Harvest Date
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  3%|▎         | 54/1674 [05:47<3:31:13,  7.82s/it]
Returning 215 rows!
Added 215 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2776
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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CC_D47_90min_pos.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Unnamed: 32
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IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Height
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 60
Returning 966 rows!
Added 966 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2852
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2885
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9981
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
neg QC1-3.raw
FILES
neg QC1-4.raw
FILES
neg QC1-5.raw
FILES
neg WT_1.raw
FILES
neg WT_2.raw
FILES
neg WT_3.raw
FILES
neg WT_Met_1.raw
FILES
neg WT_Met_2.raw
FILES
neg WT_Met_3.raw
FILES
pos QC1-3.raw
FILES
pos QC1-4.raw
FILES
pos QC1-5.raw
FILES
pos WT_1.raw
FILES
pos WT_2.raw
FILES
pos WT_3.raw
FILES
pos WT_Met_1.raw
FILES
pos WT_Met_2.raw
FILES
pos WT_Met_3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  3%|▎         | 58/1674 [06:21<2:56:32,  6.55s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  4%|▎         | 59/1674 [06:27<2:49:16,  6.29s/it]
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9985
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Focus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
KB1.raw
FILES
RAW_FILES
NEG
KB2.raw
FILES
RAW_FILES
NEG
KB3.raw
FILES
RAW_FILES
NEG
KB4.raw
FILES
RAW_FILES
NEG
T-1.raw
FILES
RAW_FILES
NEG
T-10.raw
FILES
RAW_FILES
NEG
T-11.raw
FILES
RAW_FILES
NEG
T-12.raw
FILES
RAW_FILES
NEG
T-13.raw
FILES
RAW_FILES
NEG
T-14.raw
FILES
RAW_FILES
NEG
T-15.raw
FILES
RAW_FILES
NEG
T-16.raw
FILES
RAW_FILES
NEG
T-17.raw
FILES
RAW_FILES
NEG
T-18.raw
FILES
RAW_FILES
NEG
T-19.raw
FILES
RAW_FILES
NEG
T-2.raw
FILES
RAW_FILES
NEG
T-20.raw
FILES
RAW_FILES
NEG
T-3.raw
FILES
RAW_FILES
NEG
T-4.raw
FILES
RAW_FILES
NEG
T-5.raw
FILES
RAW_FILES
NEG
T-6.raw
FILES
RAW_FILES
NEG
T-7.raw
FILES
RAW_FILES
NEG
T-8.raw
FILES
RAW_FILES
NEG
T-9.raw
FILES
RAW_FILES
POS
KB1.raw
FILES
RAW_FILES
POS
KB2.raw
FILES
RAW_FILES
POS
KB3.raw
FILES
RAW_FILES
POS
KB4.raw
FILES
RAW_FILES
POS
T-1.raw
FILES
RAW_FILES
POS
T-10.raw
FILES
RAW_FILES
POS
T-11.raw
FILES
RAW_FILES
POS
T-12.raw
FILES
RAW_FILES
POS
T-13.raw
FILES
RAW_FILES
POS
T-14.raw
FILES
RAW_FILES
POS
T-15.raw
FILES
RAW_FILES
POS
T-16.raw
FILES
RAW_FILES
POS
T-17.raw
FILES
RAW_FILES
POS
T-18.raw
FILES
RAW_FILES
POS
T-19.raw
FILES
RAW_FILES
POS
T-2.raw
FILES
RAW_FILES
POS
T-20.raw
FILES
RAW_FILES
POS
T-3.raw
FILES
RAW_FILES
POS
T-4.raw
FILES
RAW_FILES
POS
T-5.raw
FILES
RAW_FILES
POS
T-6.raw
FILES
RAW_FILES
POS
T-7.raw
FILES
RAW_FILES
POS
T-8.raw
FILES
RAW_FILES
POS
T-9.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS106
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QXA11NEG20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_03.mzML
FILES
QXA11NEG20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_04.mzML
FILES
QXA11NEG20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_05.mzML
FILES
QXA11NEG20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_07.mzML
FILES
QXA11NEG20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_11.mzML
FILES
QXA11NEG20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_13.mzML
FILES
QXA11NEG20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_14.mzML
FILES
QXA11NEG20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_15.mzML
FILES
QXA12POSEAR20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_12.mzML
FILES
QXA12POSEAR20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_15.mzML
FILES
QXA12POSEAR20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_24.mzML
FILES
QXA12POSEAR20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_26.mzML
FILES
QXA12POSEAR20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_03.mzML
FILES
QXA12POSEAR20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_15.mzML
FILES
QXA12POSEAR20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_21.mzML
FILES
QXA12POSEAR20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_30.mzML
FILES
QXA12POSLAT20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_12.mzML
FILES
QXA12POSLAT20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_15.mzML
FILES
QXA12POSLAT20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_24.mzML
FILES
QXA12POSLAT20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_26.mzML
FILES
QXA12POSLAT20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_03.mzML
FILES
QXA12POSLAT20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_15.mzML
FILES
QXA12POSLAT20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_21.mzML
FILES
QXA12POSLAT20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_30.mzML
FILES
QXA13POL20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_12.mzML
FILES
QXA13POL20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_15.mzML
FILES
QXA13POL20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_24.mzML
FILES
QXA13POL20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)1_26.mzML
FILES
QXA13POL20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_03.mzML
FILES
QXA13POL20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_15.mzML
FILES
QXA13POL20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_21.mzML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  4%|▎         | 60/1674 [06:32<2:45:05,  6.14s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  4%|▎         | 61/1674 [06:39<2:48:36,  6.27s/it]
QXA13POL20151023_UNZU0215MD_HUMAN_MAMMALIAN_CELLS_(NON-CHO)2_30.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Cell line
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1066
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
000_DaLi_H9M9_Blank_01_neg_05.mzML
FILES
000_DaLi_H9M9_Blank_01_neg_06_HILIC.mzML
FILES
000_DaLi_H9M9_Blank_01_pos_06.mzML
FILES
000_DaLi_H9M9_Blank_01_pos_06_HILIC.mzML
FILES
003_DaLi_H9M9_Pool_01_neg_08.mzML
FILES
003_DaLi_H9M9_Pool_01_neg_09_HILIC.mzML
FILES
003_DaLi_H9M9_Pool_01_pos_09.mzML
FILES
003_DaLi_H9M9_Pool_01_pos_09_HILIC.mzML
FILES
014_DaLi_H9M9_H_C_R1_neg_19.mzML
FILES
014_DaLi_H9M9_H_C_R1_neg_20_HILIC.mzML
FILES
014_DaLi_H9M9_H_C_R1_pos_20.mzML
FILES
014_DaLi_H9M9_H_C_R1_pos_20_HILIC.mzML
FILES
017_DaLi_H9M9_BC_MCT_R1_neg_22.mzML
FILES
017_DaLi_H9M9_BC_MCT_R1_neg_23_HILIC.mzML
FILES
017_DaLi_H9M9_BC_MCT_R1_pos_23.mzML
FILES
017_DaLi_H9M9_BC_MCT_R1_pos_23_HILIC.mzML
FILES
019_DaLi_H9M9_H_LCT_R1_neg_24.mzML
FILES
019_DaLi_H9M9_H_LCT_R1_neg_25_HILIC.mzML
FILES
019_DaLi_H9M9_H_LCT_R1_pos_25.mzML
FILES
019_DaLi_H9M9_H_LCT_R1_pos_25_HILIC.mzML
FILES
032_DaLi_H9M9_BC_C_R1_neg_37.mzML
FILES
032_DaLi_H9M9_BC_C_R1_neg_38_HILIC.mzML
FILES
032_DaLi_H9M9_BC_C_R1_pos_38.mzML
FILES
032_DaLi_H9M9_BC_C_R1_pos_38_HILIC.mzML
FILES
033_DaLi_H9M9_H_MCT_R1_neg_38.mzML
FILES
033_DaLi_H9M9_H_MCT_R1_neg_39_HILIC.mzML
FILES
033_DaLi_H9M9_H_MCT_R1_pos_39.mzML
FILES
033_DaLi_H9M9_H_MCT_R1_pos_39_HILIC.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Diet
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Samples_Health status
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 28 rows!
Added 28 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1073/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  4%|▎         | 62/1674 [06:44<2:39:58,  5.95s/it]
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
neg_mock-1_a.raw
FILES
neg_mock-1_b.raw
FILES
neg_mock-2_a.raw
FILES
neg_mock-2_b.raw
FILES
neg_mock-3_a.raw
FILES
neg_mock-3_b.raw
FILES
neg_sub-1_a.raw
FILES
neg_sub-1_b.raw
FILES
neg_sub-2_a.raw
FILES
neg_sub-2_b.raw
FILES
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FILES
neg_sub-3_b.raw
FILES
neg_wt-1_a.raw
FILES
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FILES
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FILES
neg_wt-2_b.raw
FILES
neg_wt-3_a.raw
FILES
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FILES
pos_mock-1_a.raw
FILES
pos_mock-1_b.raw
FILES
pos_mock-2_a.raw
FILES
pos_mock-2_b.raw
FILES
pos_mock-3_a.raw
FILES
pos_mock-3_b.raw
FILES
pos_sub-1_a.raw
FILES
pos_sub-1_b.raw
FILES
pos_sub-2_a.raw
FILES
pos_sub-2_b.raw
FILES
pos_sub-3_a.raw
FILES
pos_sub-3_b.raw
FILES
pos_wt-1_a.raw
FILES
pos_wt-1_b.raw
FILES
pos_wt-2_a.raw
FILES
pos_wt-2_b.raw
FILES
pos_wt-3_a.raw
FILES
pos_wt-3_b.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Column type
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IGNORED:  extension
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1079
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  LECO Pegasus 4D: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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FILES
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FILES
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FILES
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Exp3_QC_1_1.cdf
FILES
Exp3_QC_1_2.cdf
FILES
Exp3_QC_2_1.cdf
FILES
Exp3_QC_2_2.cdf
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Exp3_QC_2_3.cdf
FILES
Exp3_QC_3_1.cdf
FILES
Exp3_QC_3_2.cdf
FILES
Exp3_QC_3_3.cdf
FILES
Exp4_2D_blank_1.cdf
FILES
F_t8_a_1.cdf
FILES
F_t8_b_1.cdf
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LNN1_t0_1.cdf
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LNN1_t1_1.cdf
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LNN1_t8_1.cdf
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LNN3_t8_1.cdf
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LNN4_t0_1.cdf
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LNN4_t1_1.cdf
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LNN4_t2_1.cdf
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LNN4_t4_1.cdf
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LNN4_t8_1.cdf
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LNN5_t0_1.cdf
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LNN5_t1_1.cdf
FILES
LNN5_t2_1.cdf
FILES
LNN5_t4_1.cdf
FILES
LNN5_t8_1.cdf
FILES
LNN6_t0_1.cdf
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LNN6_t1_1.cdf
FILES
LNN6_t2_1.cdf
FILES
LNN6_t4_1.cdf
FILES
LNN6_t8_1.cdf
FILES
QC1_1.cdf
FILES
QC1_2.cdf
FILES
QC1_3.cdf
FILES
QC2_1.cdf
FILES
QC2_2.cdf
FILES
QC2_3.cdf
FILES
QC3_1.cdf
FILES
QC3_2.cdf
FILES
QC3_3.cdf
FILES
QC4_1.cdf
FILES
QC4_2.cdf
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FILES
QC5_1.cdf
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QC5_3.cdf
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QC6_3.cdf
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QC_1.cdf
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QC_2.cdf
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QC_3.cdf
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QC_4.cdf
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QC_A_1.cdf
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QC_A_2.cdf
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QC_A_3.cdf
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QC_B_1.cdf
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QC_B_2.cdf
FILES
QC_B_3.cdf
IGNORED:  Samples_Plasmid
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Column type 1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Column model 2
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Dialysis
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  4%|▍         | 63/1674 [06:54<3:09:03,  7.04s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  4%|▍         | 64/1674 [06:58<2:44:41,  6.14s/it]
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Lysate
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Column model 1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
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IGNORED:  keep
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IGNORED:  Assay_Term Source REF.7
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type 2
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 152 rows!
Added 152 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS108
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Lut_A_220d.raw
FILES
Lut_A_221a.raw
FILES
Lut_A_221e.raw
FILES
Lut_A_222f.raw
FILES
Lut_A_223a.raw
FILES
Lut_A_223b.raw
FILES
Lut_A_223e.raw
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Lut_A_223f.raw
FILES
Lut_A_224a.raw
FILES
Lut_A_224d.raw
FILES
Lut_A_224e.raw
FILES
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Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1080
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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  Thermo Scientific Q Exactive Plus: missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Is Fluid/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

  4%|▍         | 65/1674 [07:05<2:54:54,  6.52s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  keep
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Number of rows removed due to not enough metadata: 1
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1085
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  keep
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IGNORED:  Assay_Term Source REF.6
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Number of rows removed due to not enough metadata: 0
Returning 215 rows!
Added 215 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS109
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
A-car_A_220g.raw
FILES
A-car_A_220h.raw
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A-car_A_221f.raw
FILES
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A-car_C_224e.raw
FILES
A-car_C_224f.raw
FILES
A-car_C_224g.raw
FILES
A-car_C_291e.raw
FILES
A-car_C_291g.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Samples_Sample Name
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IGNORED:  Samples_Carotenoids
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1093
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1894
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS110
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
B-car_A_220h.raw
FILES
B-car_A_221f.raw
FILES
B-car_A_221j.raw
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B-car_A_223j.raw
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B-car_A_223l.raw
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B-car_A_223m.raw
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Carotenoids
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1103
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1104
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific ISQ: missing value
  Thermo Scientific Q Exactive: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DS_180824_ISQ_04.mzXML
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.5
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 34 rows!
Added 34 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1106
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
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IGNORED:  Assay_Term Source REF.16
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IGNORED:  Samples_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  4%|▍         | 74/1674 [07:46<2:30:07,  5.63s/it]
  4%|▍         | 75/1674 [07:50<2:10:18,  4.89s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▍         | 76/1674 [07:54<2:08:28,  4.82s/it]
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
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IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
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IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Term Accession Number.16
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IGNORED:  Assay_Term Source REF.14
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IGNORED:  Assay_Raw data file format
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 168 rows!
Added 168 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1108
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS111
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Lyc_A_221f.raw
FILES
Lyc_A_221i.raw
FILES
Lyc_A_221j.raw
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Lyc_A_290f.raw
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Lyc_C_221a.raw
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Lyc_C_223a.raw
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Lyc_C_223b.raw
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Lyc_C_223d.raw
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Lyc_C_223f.raw
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Lyc_C_224b.raw
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1115
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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X12_1_pos.wiff
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X12_2_neg.wiff
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X12_2_pos.wiff
FILES
X12_3_neg.wiff
FILES
X12_3_pos.wiff/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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  5%|▍         | 78/1674 [08:02<1:53:17,  4.26s/it]
FILES
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 67 rows!
Added 67 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS112
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1124
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-S QTof: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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womenLCCstage3_1783.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 264 rows!
Added 264 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1127
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX API 4000: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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FILES
F9-3.mzML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Olive fruit maturation
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IGNORED:  Assay_Sample Name
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IGNORED:  filename_lower
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1129
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-S QTof: missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Disease staging
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IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Source REF.5/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▍         | 81/1674 [08:24<2:45:56,  6.25s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▍         | 82/1674 [08:30<2:39:11,  6.00s/it]
IGNORED:  extension
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 264 rows!
Added 264 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1039
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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ENVOEnvironmentBiome:
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IGNORED:  Assay_Term Source REF.7
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IGNORED:  Assay_Post Extraction
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Run
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
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IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1071
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
DERIVED_FILES
CB_HF_Neg_1.mzML
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DERIVED_FILES
CB_HF_Neg_2.mzML
FILES
DERIVED_FILES
CB_HF_Neg_3.mzML
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CB_HF_Pos_1.mzML
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CB_HF_Pos_2.mzML
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CB_HF_Pos_3.mzML
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CB_LF_Neg_1.mzML
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CB_LF_Neg_2.mzML
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CB_LF_Neg_3.mzML
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CB_LF_Pos_1.mzML
FILES
DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▍         | 83/1674 [08:34<2:25:16,  5.48s/it]
CB_LF_Pos_2.mzML
FILES
DERIVED_FILES
CB_LF_Pos_3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1132
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker maXis impact UHR-QTOF: missing value
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FILES
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IGNORED:  Assay_fold dilution
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_Fresh tissue extracted
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Accession
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
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IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▌         | 84/1674 [08:41<2:36:02,  5.89s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▌         | 85/1674 [08:49<2:55:39,  6.63s/it]
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1133
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 6520A Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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P101_b2_pos.d
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P7_b1_pos.d
FILES
P80_b1_pos.d
FILES
P81_b1_pos.d
FILES
P82_b1_pos.d
FILES
P83_b1_pos.d
FILES
P84_b1_pos.d
FILES
P85_b1_pos.d
FILES
P86_b1_pos.d
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P87_b1_pos.d
FILES
P88_b1_pos.d
FILES
P89_b1_pos.d
FILES
P8_b1_pos.d
FILES
P90_b1_pos.d
FILES
P91_b1_pos.d
FILES
P92_b1_pos.d
FILES
P93_b1_pos.d
FILES
P94_b2_pos.d
FILES
P95_b2_pos.d
FILES
P96_b2_pos.d
FILES
P97_b2_pos.d
FILES
P98_b2_pos.d
FILES
P99_b2_pos.d
FILES
P9_b1_pos.d
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QC1_b1_pos.d
FILES
Solvent1_b1_pos.d
FILES
blankNO injection1_b1_pos.d
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 168 rows!
Added 168 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1138
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos: missing value
ENVOEnvironmentBiome:
  nan: missing value
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  nan: missing value
FILES
1Oacylcer 15769-1-011018-4_1.raw
FILES
1Oacylcer 16018-5-030215-3_1.raw
FILES
1Oacylcer 16657-1-022015-1-o-acyl_1.raw
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1Oacylcer 16657-2-022015-3-o-acyl_1.raw
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1Oacylcer 16657-3-030215-1_1.raw
FILES
1Oacylcer 16657-4-030215-2_1.raw
FILES
1Oacylcer 16657-7-022015-2-o-acyl_1.raw
FILES
1Oacylcer 16721-1-011018-3_1.raw
FILES
1Oacylcer 16721-2-011018-2_1.raw
FILES
1Oacylcer 16721-3-011018-6_1.raw
FILES
1Oacylcer 16721-4-011018-5_1.raw
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1Oacylcer 16721-7-011018-1_2.raw
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Cer 15177-5-091114-7_1.raw
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Cer 15830-6-0929152-f2_1.raw
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Cer 16018-1-091014-3_4.raw
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Cer 16657-3-062615-2_1.raw
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FA 16018-1-091114-3_1.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▌         | 86/1674 [08:55<2:52:09,  6.50s/it]
  5%|▌         | 87/1674 [08:56<2:10:17,  4.93s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▌         | 88/1674 [09:01<2:07:57,  4.84s/it]
  5%|▌         | 89/1674 [09:03<1:41:15,  3.83s/it]
FILES
FA 16018-2-092915c-f3_1.raw
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boundCer 16657-3-062615-9_1.raw
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boundCer 16657-4-062615-10_1.raw
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boundCer 16657-7-062615-8_1.raw
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boundFA 16657-3-062615-16_1.raw
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FILES
boundFA 16657-7-062615-15_1.raw
FILES
boundFA 16721-1-091515 boundFA_3.raw
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boundFA 16721-2-091515 boundFA_2.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
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IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
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IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 91 rows!
Added 91 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS114
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1140
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CON1_neg.wiff
FILES
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FILES
CON3_neg.wiff
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FILES
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FILES
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QC02_neg.wiff
FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Label
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Dose
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 17 rows!
Added 17 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1145
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1167
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▌         | 90/1674 [09:09<2:03:18,  4.67s/it]
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 62 rows!
Added 62 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1168
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CD1-neg.raw
FILES
CD1-pos.raw
FILES
CD2-neg.raw
FILES
CD2-pos.raw
FILES
CD3-neg.raw
FILES
CD3-pos.raw
FILES
CD4-neg.raw
FILES
CD4-pos.raw
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CD5-neg.raw
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CD5-pos.raw
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CD6-neg.raw
FILES
CD6-pos.raw
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CD7-neg.raw
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CD7-pos.raw
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FILES
HD1-neg.raw
FILES
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FILES
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HD4-pos.raw
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HD5-neg.raw
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HD6-neg.raw
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HD7-neg.raw
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HFD1-neg.raw
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HFD3-neg.raw
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LD3-pos.raw
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LD5-neg.raw
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LD5-pos.raw
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LD6-neg.raw
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LD7-neg.raw
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LD7-pos.raw
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LD8-neg.raw
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MD2-neg.raw
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FILES
MD3-neg.raw
FILES
MD3-pos.raw
FILES
MD4-neg.raw
FILES
MD4-pos.raw
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MD5-neg.raw
FILES
MD5-pos.raw
FILES
MD6-neg.raw
FILES
MD6-pos.raw
FILES
MD7-neg.raw
FILES
MD7-pos.raw
FILES
MD8-neg.raw
FILES
MD8-pos.raw
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Diet
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Protocol REF
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  5%|▌         | 91/1674 [09:15<2:12:37,  5.03s/it]
  5%|▌         | 92/1674 [09:17<1:45:58,  4.02s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  6%|▌         | 93/1674 [09:22<1:53:07,  4.29s/it]
IGNORED:  Samples_group
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Dose
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 80 rows!
Added 80 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1182
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1186
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977A MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
F11am_Apo_1.mzXML
FILES
F11am_Apo_2.mzXML
FILES
F11am_Apo_3.mzXML
FILES
F11am_S_2.mzXML
FILES
F11am_S_3.mzXML
FILES
F4am_Apo_1.mzXML
FILES
F4am_Apo_2.mzXML
FILES
F4am_Apo_3.mzXML
FILES
F4am_S_1.mzXML
FILES
F4am_S_2.mzXML
FILES
F4am_S_3.mzXML
FILES
F4am_S_4.mzXML
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F7pm_Apo_1.mzXML
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F7pm_Apo_2.mzXML
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F7pm_S_3.mzXML
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M11am_Apo_1.mzXML
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FILES
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FILES
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FILES
M4am_Apo_1.mzXML
FILES
M4am_Apo_2.mzXML
FILES
M4am_Apo_3.mzXML
FILES
M4am_S_1.mzXML
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M4am_S_2.mzXML
FILES
M4am_S_3.mzXML
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M7pm_Apo_1.mzXML
FILES
M7pm_Apo_2.mzXML
FILES
M7pm_Apo_3.mzXML
FILES
M7pm_S_1.mzXML
FILES
M7pm_S_2.mzXML
FILES
M7pm_S_3.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Symbiotic status
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Time of day
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 34 rows!
Added 34 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1188
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
FRAG_NEG.mzml
FILES
FRAG_POS.mzml
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KM_1.mzxml
FILES
KM_10.mzxml
FILES
KM_10_neg.mzxml
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KM_11.mzxml
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KM_11_neg.mzxml
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KM_12.mzxml
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KM_12_neg.mzxml
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KM_19.mzxml
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KM_1_neg.mzxml
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KM_2.mzxml
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KM_20.mzxml
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KM_8.mzxml
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KM_9.mzxml
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matrix_blank1.mzxml
FILES
matrix_blank1_neg.mzxml
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FILES
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FILES
matrix_blank3.mzxml
FILES
matrix_blank3_neg.mzxml
FILES
matrix_blank4.mzxml
FILES
matrix_blank4_neg.mzxml
FILES
matrix_blank5.mzxml
FILES
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FILES
matrix_blank6.mzxml
FILES
matrix_blank6_neg.mzxml
FILES
pooled_10.mzxml
FILES
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pooled_11.mzxml
FILES
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FILES
pooled_12.mzxml
FILES
pooled_12_neg.mzxml
FILES
pooled_13.mzxml
FILES
pooled_13_neg.mzxml
FILES
pooled_7.mzxml
FILES
pooled_7_neg.mzxml
FILES
pooled_8.mzxml
FILES
pooled_8_neg.mzxml
FILES
pooled_9.mzxml
FILES
pooled_9_neg.mzxml
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_IFN response
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  6%|▌         | 94/1674 [09:28<2:11:54,  5.01s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  6%|▌         | 95/1674 [09:34<2:13:48,  5.08s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  6%|▌         | 96/1674 [09:38<2:11:16,  4.99s/it]
  6%|▌         | 97/1674 [09:40<1:45:17,  4.01s/it]
  6%|▌         | 98/1674 [09:42<1:26:56,  3.31s/it]
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 12
Returning 58 rows!
Added 58 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1196
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus HT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
FILES
SH-1.cdf
FILES
SH-2.cdf
FILES
SH-3.cdf
FILES
SH-4.cdf
FILES
control-1.cdf
FILES
control-2.cdf
FILES
control-3.cdf
FILES
control-4.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
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Returning 8 rows!
Added 8 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11229
Request successful!
SampleCollectionMethod: ADDED!
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Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1198
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS12
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS120
Request successful!
SampleCollectionMethod: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
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FILES
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130615_Pos_120_1B.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  6%|▌         | 99/1674 [09:48<1:52:48,  4.30s/it]
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Number of rows removed due to not enough metadata: 0
Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1206
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1209
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1210
Request successful!
SampleCollectionMethod: ADDED!
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DepthorAltitudeMeters: ADDED!
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DE_1_MSA_LC.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

  6%|▌         | 102/1674 [10:04<2:32:47,  5.83s/it]
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SA.mzML
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SA_1_HCl_GC.mzML
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SC-1.mzML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
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IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Batch Number (Hydrolysis)
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Humidity
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IGNORED:  Samples_Cell Dry Weight (Hydrolysis)
IGNORED:  Assay_Replicate
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Samples_BioModels_ID
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Samples_Cell line source
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Unit (Cell Dry Weight)
IGNORED:  Assay_DI Instrument
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_growth supplement
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 16
Returning 275 rows!
Added 275 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1217
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  6%|▌         | 103/1674 [10:09<2:23:47,  5.49s/it]
  nan: missing value
FILES
12C13CRemus_Untreated_1.mzXML
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12C13CRemus_Untreated_2.mzXML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 11 rows!
Added 11 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1219
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
HILIC
NEG
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
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Number of rows removed due to not enough metadata: 0
Returning 92 rows!
Added 92 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1191
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Gene Knockout
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IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  filepath
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1221
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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  : missing value
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FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_Sample source
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  extension
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Number of rows removed due to not enough metadata: 0
Returning 44 rows!
Added 44 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1223
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters ACQUITY TQD: missing value
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FILES
TQ0428170701.CDF
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Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1225
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  6%|▋         | 108/1674 [10:39<2:40:14,  6.14s/it]
  7%|▋         | 109/1674 [10:44<2:32:55,  5.86s/it]
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Number of rows removed due to not enough metadata: 0
Returning 126 rows!
Added 126 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS123
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1257
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  7%|▋         | 110/1674 [10:56<3:17:30,  7.58s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Samples_Mouse Identifier
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Analytes Of Interest
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Drug Treatment
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 250 rows!
Added 250 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1259
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo TQ: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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intestine/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 252 rows!
Added 252 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1264
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1266
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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ENVOEnvironmentBiome:
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 80 rows!
Added 80 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1267
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1274
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1282
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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IonizationSourceAndPolarity:
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ChromatographyAndPhase:
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IGNORED:  Assay_Scan m/z range/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  7%|▋         | 116/1674 [11:38<2:39:54,  6.16s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  7%|▋         | 117/1674 [11:44<2:37:43,  6.08s/it]
IGNORED:  Is Descendant
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 176 rows!
Added 176 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1285
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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181012_RC181009_PBQC_10.raw
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181012_RC181009_PBQC_11.raw
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181012_RC181009_PBQC_12.raw
FILES
181012_RC181009_PBQC_13.raw
FILES
181012_RC181009_PBQC_14.raw
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181012_RC181009_PBQC_15.raw
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181012_RC181009_PBQC_16.raw
FILES
181012_RC181009_PBQC_17.raw
FILES
181012_RC181009_PBQC_18.raw
FILES
181012_RC181009_PBQC_7.raw
FILES
181012_RC181009_PBQC_8.raw
FILES
181012_RC181009_PBQC_9.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Collection time
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 63 rows!
Added 63 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1286
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
190123_MM_01.CDF
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190123_MM_02.CDF
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190123_MM_03.CDF
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190123_MM_04.CDF
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FILES
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FILES
RC181009_47.CDF
FILES
RC181009_48.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  7%|▋         | 118/1674 [11:52<2:51:14,  6.60s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  7%|▋         | 119/1674 [11:57<2:39:14,  6.14s/it]
FILES
RC181009_49.CDF
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RC181009_64.CDF
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RC181009_65.CDF
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RC181009_70.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Collection time point
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_Sample Donor
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 23
Returning 68 rows!
Added 68 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS129
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos: missing value
  Agilent 6540 Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
TT8-Br1-Tr1.RAW
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  keep
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IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1295
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  XEVO TQ-S mass spectrometer: missing value
IonizationSourceAndPolarity:
   (negative): missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20190410_BLANK_0101.CDF
FILES
20190410_BLANK_0102.CDF
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20190410_BLANK_0103.CDF
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CH-6601.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  7%|▋         | 120/1674 [12:05<2:58:06,  6.88s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  7%|▋         | 121/1674 [12:11<2:46:40,  6.44s/it]
FILES
CH-6701.CDF
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CH-7101.CDF
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CH-7201.CDF
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CH-73-101.CDF
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  keep
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 100 rows!
Added 100 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1302
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1309
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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FILES
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matrix_blank6.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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Number of rows removed due to not enough metadata: 0
Returning 86 rows!
Added 86 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1275
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
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qiita_sample_name: ADDED!
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IGNORED:  Assay_Ion source/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  7%|▋         | 123/1674 [12:26<3:00:29,  6.98s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  7%|▋         | 124/1674 [12:32<2:55:51,  6.81s/it]
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 80 rows!
Added 80 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1311
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 42
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1319
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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  8%|▊         | 126/1674 [12:46<2:45:49,  6.43s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Drug
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_NT_code
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Drug concentration
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 115
Returning 140 rows!
Added 140 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1320
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS135
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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QXA05NEG20150323_DFCI1014_PROSTATE_2_15.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

  8%|▊         | 127/1674 [12:55<3:03:36,  7.12s/it]
  8%|▊         | 128/1674 [12:57<2:22:49,  5.54s/it]
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QXA06POL20150323_DFCI1014_PROSTATE_2_20.mzML
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QXA06POL20150323_DFCI1014_PROSTATE_2_24.mzML
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QXA06POL20150323_DFCI1014_PROSTATE_2_25.mzML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Diet
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
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Returning 120 rows!
Added 120 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1355
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1358
Request successful!
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FILES
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033_Spikesol_6666ppb_diluted10_neg_Spiking.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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Number of rows removed due to not enough metadata: 20
Returning 132 rows!
Added 132 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1359
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS136
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_AgeAtBloodDraw
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  8%|▊         | 131/1674 [15:54<22:56:05, 53.51s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

  8%|▊         | 132/1674 [16:03<17:09:30, 40.06s/it]
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
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IGNORED:  Assay_Term Source REF.7
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IGNORED:  Samples_CurrentPMH
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
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IGNORED:  Samples_Secondary identifier
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
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IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 6186 rows!
Added 6186 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1369
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QExHF03_HPLC_0000090.mzML
FILES
QExHF03_HPLC_0000091.mzML
FILES
QExHF03_HPLC_0000092.mzML
FILES
QExHF03_HPLC_0000093.mzML
FILES
QExHF03_HPLC_0000094.mzML
FILES
QExHF03_HPLC_0000095.mzML
FILES
QExHF03_HPLC_0000096.mzML
FILES
QExHF03_HPLC_0000097.mzML
FILES
QExHF03_HPLC_0000098.mzML
FILES
QExHF03_HPLC_0000099.mzML
FILES
QExHF03_HPLC_0000100.mzML
FILES
QExHF03_HPLC_0000101.mzML
FILES
QExHF03_HPLC_0000102.mzML
FILES
QExHF03_HPLC_0000103.mzML
FILES
QExHF03_HPLC_0000104.mzML
FILES
QExHF03_HPLC_0000105.mzML
FILES
QExHF03_HPLC_0000106.mzML
FILES
QExHF03_HPLC_0000110.mzML
FILES
QExHF03_HPLC_0000111.mzML
FILES
QExHF03_HPLC_0000112.mzML
FILES
QExHF03_HPLC_0000113.mzML
FILES
QExHF03_HPLC_0000114.mzML
FILES
QExHF03_HPLC_0000115.mzML
FILES
QExHF03_HPLC_0000116.mzML
FILES
QExHF03_HPLC_0000117.mzML
FILES
QExHF03_HPLC_0000118.mzML
FILES
QExHF03_HPLC_0000119.mzML
FILES
QExHF03_HPLC_0000120.mzML
FILES
QExHF03_HPLC_0000121.mzML
FILES
QExHF03_HPLC_0000122.mzML
FILES
QExHF03_HPLC_0000123.mzML
FILES
QExHF03_HPLC_0000124.mzML
FILES
QExHF03_HPLC_0000125.mzML
FILES
QExHF03_HPLC_0000126.mzML
FILES
QExHF03_HPLC_0000130.mzML
FILES
QExHF03_HPLC_0000131.mzML
FILES
QExHF03_HPLC_0000132.mzML
FILES
QExHF03_HPLC_0000133.mzML
FILES
QExHF03_HPLC_0000134.mzML
FILES
QExHF03_HPLC_0000135.mzML
FILES
QExHF03_HPLC_0000136.mzML
FILES
QExHF03_HPLC_0000137.mzML
FILES
QExHF03_HPLC_0000138.mzML
FILES
QExHF03_HPLC_0000139.mzML
FILES
QExHF03_HPLC_0000140.mzML
FILES
QExHF03_HPLC_0000141.mzML
FILES
QExHF03_HPLC_0000142.mzML
FILES
QExHF03_HPLC_0000143.mzML
FILES
QExHF03_HPLC_0000144.mzML
FILES
QExHF03_HPLC_0000145.mzML
FILES
QExHF03_HPLC_0000146.mzML
FILES
QExHF03_HPLC_0000148.mzML
FILES
QExHF03_HPLC_0000149.mzML
FILES
QExHF03_HPLC_0000150.mzML
FILES
QExHF03_HPLC_0000151.mzML
FILES
QExHF03_HPLC_0000152.mzML
FILES
QExHF03_HPLC_0000153.mzML
FILES
QExHF03_HPLC_0000154.mzML
FILES
QExHF03_HPLC_0000155.mzML
FILES
QExHF03_HPLC_0000156.mzML
FILES
QExHF03_HPLC_0000157.mzML
FILES
QExHF03_HPLC_0000158.mzML
FILES
QExHF03_HPLC_0000159.mzML
FILES
QExHF03_HPLC_0000160.mzML
FILES
QExHF03_HPLC_0000161.mzML
FILES
QExHF03_HPLC_0000162.mzML
FILES
QExHF03_HPLC_0000163.mzML
FILES
QExHF03_HPLC_0000164.mzML
FILES
QExHF03_HPLC_0000168.mzML
FILES
QExHF03_HPLC_0000169.mzML
FILES
QExHF03_HPLC_0000170.mzML
FILES
QExHF03_HPLC_0000171.mzML
FILES
QExHF03_HPLC_0000172.mzML
FILES
QExHF03_HPLC_0000173.mzML
FILES
QExHF03_HPLC_0000174.mzML
FILES
QExHF03_HPLC_0000175.mzML
FILES
QExHF03_HPLC_0000176.mzML
FILES
QExHF03_HPLC_0000177.mzML
FILES
QExHF03_HPLC_0000178.mzML
FILES
QExHF03_HPLC_0000179.mzML
FILES
QExHF03_HPLC_0000180.mzML
FILES
QExHF03_HPLC_0000181.mzML
FILES
QExHF03_HPLC_0000182.mzML
FILES
QExHF03_HPLC_0000183.mzML
FILES
QExHF03_HPLC_0000184.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Concentration
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Protocol REF
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Run order
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 7
Returning 78 rows!
Added 78 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS137
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  8%|▊         | 133/1674 [16:09<12:44:41, 29.77s/it]
  8%|▊         | 134/1674 [16:11<9:15:38, 21.65s/it] 
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
L002_QC_RP_POS01.CDF
FILES
L003_QC_RP_pos01.CDF
FILES
L004_QC_RP_pos01.CDF
FILES
L005_001_LRGe_RP_pos01.CDF
FILES
L006_002_LPIh_RP_pos01.CDF
FILES
L007_003_LRIj_RP_pos01.CDF
FILES
L008_004_LRIh_RP_pos01.CDF
FILES
L009_005_LRGa_RP_pos01.CDF
FILES
L010_006_LRGh_RP_pos01.CDF
FILES
L011_QC_RP_pos01.CDF
FILES
L012_007_LRGc_RP_pos01.CDF
FILES
L013_008_LRIc_RP_pos01.CDF
FILES
L014_009_LRIg_RP_pos01.CDF
FILES
L015_010_LPIi_RP_pos01.CDF
FILES
L016_011_LPGb_RP_pos01.CDF
FILES
L017_012_LRGf_RP_pos01.CDF
FILES
L018_QC_RP_pos01.CDF
FILES
L019_013_LRIa_RP_pos01.CDF
FILES
L020_014_LPGf_RP_pos01.CDF
FILES
L021_015_LPIj_RP_pos01.CDF
FILES
L022_016_LRGd_RP_pos01.CDF
FILES
L023_017_LPGc_RP_pos01.CDF
FILES
L024_018_LPIg_RP_pos01.CDF
FILES
L025_QC_RP_pos01.CDF
FILES
L026_019_LPIc_RP_pos01.CDF
FILES
L027_020_LRGb_RP_pos01.CDF
FILES
L028_021_LRIf_RP_pos01.CDF
FILES
L029_022_LRGg_RP_pos01.CDF
FILES
L030_023_LPIa_RP_pos01.CDF
FILES
L031_024_LRGi_RP_pos01.CDF
FILES
L032_QC_RP_pos01.CDF
FILES
L033_025_LPGd_RP_pos01.CDF
FILES
L034_026_LRIb_RP_pos01.CDF
FILES
L035_027_LPGh_RP_pos01.CDF
FILES
L036_028_LPIb_RP_pos01.CDF
FILES
L037_029_LPGe_RP_pos01.CDF
FILES
L038_030_LPIf_RP_pos01.CDF
FILES
L039_QC_RP_pos01.CDF
FILES
L040_031_LPIe_RP_pos01.CDF
FILES
L041_032_LRIi_RP_pos01.CDF
FILES
L042_033_LPGj_RP_pos01.CDF
FILES
L043_034_LRId_RP_pos01.CDF
FILES
L044_035_LPId_RP_pos01.CDF
FILES
L045_036_LPGi_RP_pos01.CDF
FILES
L046_QC_RP_pos01.CDF
FILES
L047_037_LPGa_RP_pos01.CDF
FILES
L048_038_LRIe_RP_pos01.CDF
FILES
L049_039_LRGj_RP_pos01.CDF
FILES
L050_040_LPGg_RP_pos01.CDF
FILES
L051_QC_RP_pos01.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Country
IGNORED:  Samples_Organism
IGNORED:  Samples_Variety
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1370
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1371
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-XS QTof: missing value
IonizationSourceAndPolarity:
   (negative): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
IKHH29.mzxml
FILES
IKHH36.mzxml
FILES
IKHH38.mzxml
FILES
IKHH39.mzxml
FILES
IKHH40.mzxml
FILES
IKHH43.mzxml
FILES
IKSM04.mzxml
FILES
IKSM05.mzxml
FILES
IKSM06.mzxml
FILES
IKSM07.mzxml
FILES
IKSM10.mzxml
FILES
IKSM100.mzxml
FILES
IKSM101.mzxml
FILES
IKSM104.mzxml
FILES
IKSM106.mzxml
FILES
IKSM107.mzxml
FILES
IKSM108.mzxml
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IKSM109.mzxml
FILES
IKSM11.mzxml
FILES
IKSM110.mzxml
FILES
IKSM111.mzxml
FILES
IKSM112.mzxml
FILES
IKSM113.mzxml
FILES
IKSM114.mzxml
FILES
IKSM116.mzxml
FILES
IKSM117.mzxml
FILES
IKSM118.mzxml
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IKSM119.mzxml
FILES
IKSM120.mzxml
FILES
IKSM121.mzxml
FILES
IKSM122.mzxml
FILES
IKSM124.mzxml
FILES
IKSM125.mzxml
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IKSM126.mzxml
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IKSM129.mzxml
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IKSM13.mzxml
FILES
IKSM133.mzxml
FILES
IKSM134.mzxml
FILES
IKSM138.mzxml
FILES
IKSM139.mzxml
FILES
IKSM140.mzxml
FILES
IKSM141.mzxml
FILES
IKSM148.mzxml
FILES
IKSM16.mzxml
FILES
IKSM17.mzxml
FILES
IKSM21.mzxml
FILES
IKSM23.mzxml
FILES
IKSM25.mzxml
FILES
IKSM32.mzxml
FILES
IKSM38.mzxml
FILES
IKSM39.mzxml
FILES
IKSM42.mzxml
FILES
IKSM45.mzxml
FILES
IKSM48.mzxml
FILES
IKSM49.mzxml
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IKSM61.mzxml
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IKSM65.mzxml
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IKSM66.mzxml
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IKSM67.mzxml
FILES
IKSM71.mzxml
FILES
IKSM73.mzxml
FILES
IKSM77.mzxml
FILES
IKSM80.mzxml
FILES
IKSM81.mzxml
FILES
IKSM85.mzxml
FILES
IKSM92.mzxml
FILES
IKSM94.mzxml
FILES
IKSM95.mzxml
FILES
IKSM96.mzxml
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MK103.mzxml
FILES
MK106.mzxml
FILES
MK107.mzxml
FILES
MK124.mzxml
FILES
MK136.mzxml
FILES
MK140.mzxml
FILES
MK150.mzxml
FILES
MK161.mzxml
FILES
MK163.mzxml
FILES
MK167.mzxml
FILES
MK168.mzxml
FILES
MK169.mzxml
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MK175.mzxml
FILES
MK176.mzxml
FILES
MK187.mzxml
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MK188.mzxml
FILES
MK196.mzxml
FILES
MK198.mzxml
FILES
MK199.mzxml
FILES
MK203.mzxml
FILES
MK206.mzxml
FILES
MK223.mzxml
FILES
MK228.mzxml
FILES
MK229.mzxml
FILES
MK242.mzxml
FILES
MK256.mzxml
FILES
MK261.mzxml
FILES
MK262.mzxml
FILES
MK263.mzxml
FILES
MK268.mzxml
FILES
MK270.mzxml
FILES
MK274.mzxml
FILES
MK275.mzxml
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MK276.mzxml
FILES
MK277.mzxml
FILES
MK285.mzxml
FILES
MK290.mzxml
FILES
MK291.mzxml
FILES
MK292.mzxml
FILES
MK294.mzxml
FILES
MK295.mzxml
FILES
MK296.mzxml
FILES
MK297.mzxml
FILES
MK299.mzxml
FILES
MK300.mzxml
FILES
MK301.mzxml
FILES
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FILES
MK312.mzxml
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MK32.mzxml
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MK332.mzxml
FILES
MK76.mzxml
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MK81.mzxml
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MK83.mzxml
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MK87.mzxml
FILES
MK88.mzxml
FILES
MK90.mzxml
FILES
MK91.mzxml
FILES
MK92.mzxml
FILES
MK93.mzxml
FILES
MK95.mzxml
FILES
MK99.mzxml
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_hrHPV
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  8%|▊         | 135/1674 [16:18<7:20:35, 17.18s/it]
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Assay_DI Instrument
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 130 rows!
Added 130 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1375
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6495A Triple Quadrupole: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
100_PLASMA_H044_B-2.mzML
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102_PLASMA_H047_B-2.mzML
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34_PLASMA_H047_A-2.mzML
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35_TQC_A-1.mzML
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37_BQC_4_A-1.mzML
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38_BQC_4_A-2.mzML
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43_PLASMA_H050_A-1.mzML
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45_PLASMA_H051_A-1.mzML
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46_PLASMA_H051_A-2.mzML
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47_BQC_5_A-1.mzML
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48_BQC_5_A-2.mzML
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57_BQC_6_A-1.mzML
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62_PLASMA_H058_A-2.mzML
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64_PLASMA_H059_A-2.mzML
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65_PLASMA_H060_A-1.mzML
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66_PLASMA_H060_A-2.mzML
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67_BQC_7_A-1.mzML
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68_BQC_7_A-2.mzML
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69_LTR_1_B-1.mzML
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6_NIST_A-2.mzML
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70_LTR_1_B-2.mzML
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71_LTR_2_B-1.mzML
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72_LTR_2_B-2.mzML
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73_NIST_B-1.mzML
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74_NIST_B-2.mzML
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75_TQC_B-1.mzML
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76_TQC_B-2.mzML
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77_BQC_1_B-1.mzML
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78_BQC_1_B-2.mzML
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79_PLASMA_H002_B-1.mzML
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82_PLASMA_H008_B-2.mzML
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84_PLASMA_H010_B-2.mzML
FILES
85_PLASMA_H012_B-1.mzML
FILES
86_PLASMA_H012_B-2.mzML
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87_BQC_2_B-1.mzML
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88_BQC_2_B-2.mzML
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89_PLASMA_H018_B-1.mzML
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90_PLASMA_H018_B-2.mzML
FILES
91_PLASMA_H041_B-1.mzML
FILES
92_PLASMA_H041_B-2.mzML
FILES
93_PLASMA_H042_B-1.mzML
FILES
94_PLASMA_H042_B-2.mzML
FILES
95_PLASMA_H043_B-1.mzML
FILES
96_PLASMA_H043_B-2.mzML
FILES
97_BQC_3_B-1.mzML
FILES
98_BQC_3_B-2.mzML
FILES
99_PLASMA_H044_B-1.mzML
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9_BQC_1_A-1.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Variant
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_age
IGNORED:  extension
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  8%|▊         | 136/1674 [16:25<5:59:38, 14.03s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  8%|▊         | 137/1674 [16:29<4:46:14, 11.17s/it]
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 145 rows!
Added 145 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1376
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QExHF03_HPLC_0000546.mzML
FILES
QExHF03_HPLC_0000547.mzML
FILES
QExHF03_HPLC_0000548.mzML
FILES
QExHF03_HPLC_0000549.mzML
FILES
QExHF03_HPLC_0000550.mzML
FILES
QExHF03_HPLC_0000551.mzML
FILES
QExHF03_HPLC_0000552.mzML
FILES
QExHF03_HPLC_0000553.mzML
FILES
QExHF03_HPLC_0000554.mzML
FILES
QExHF03_HPLC_0000555.mzML
FILES
QExHF03_HPLC_0000556.mzML
FILES
QExHF03_HPLC_0000557.mzML
FILES
QExHF03_HPLC_0000558.mzML
FILES
QExHF03_HPLC_0000559.mzML
FILES
QExHF03_HPLC_0000560.mzML
FILES
QExHF03_HPLC_0000561.mzML
FILES
QExHF03_HPLC_0000562.mzML
FILES
QExHF03_HPLC_0000563.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Samples_Sample role
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS138
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_03.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_04.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_05.mzML
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_12.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_13.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_14.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_15.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_16.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_17.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_18.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_19.mzML
FILES
QXA01PDNEG20181113_KGCO0418VWSS7000000126_RAT_SERUM1_21.mzML
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  8%|▊         | 138/1674 [16:51<6:09:01, 14.41s/it]
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Exposure
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Samples_Dose
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 640 rows!
Added 640 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1381
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QTrap007483_031618-Blank ext.mzML
FILES
QTrap007484_031618-STD ext.mzML
FILES
QTrap007485_031618-Unst1.mzML
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QTrap007487_031618-Unst1.mzML
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QTrap007498_031618-Unst6.mzML
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QTrap007503_031618-Blank ext.mzML
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QTrap007516_031618-0.01Thr4.mzML
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QTrap007517_031618-0.01Thr6.mzML
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QTrap007524_031618-STD ext.mzML
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QTrap007529_031618-1Thr2.mzML
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QTrap007530_031618-1Thr2.mzML
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QTrap007531_031618-1Thr3.mzML
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QTrap007532_031618-1Thr3.mzML
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QTrap007533_031618-1Thr3.mzML
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QTrap007535_031618-1Thr4.mzML
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QTrap007537_031618-1Thr6.mzML
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FILES
QTrap007544_031618-STD ext.mzML
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QTrap007545_031618-1CRP1.mzML
FILES
QTrap007546_031618-1CRP1.mzML
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QTrap007547_031618-1CRP1.mzML
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QTrap007548_031618-1CRP2.mzML
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QTrap007549_031618-1CRP2.mzML
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QTrap007550_031618-1CRP2.mzML
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QTrap007551_031618-1CRP3.mzML
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QTrap007552_031618-1CRP3.mzML
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QTrap007553_031618-1CRP3.mzML
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QTrap007554_031618-1CRP4.mzML
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QTrap007555_031618-1CRP4.mzML
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QTrap007556_031618-1CRP4.mzML
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QTrap007557_031618-1CRP6.mzML
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QTrap007558_031618-1CRP6.mzML
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QTrap007559_031618-1CRP6.mzML
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QTrap007563_031718-Blank ext.mzML
FILES
QTrap007564_031718-STD ext.mzML
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QTrap007565_031718-5CRP1.mzML
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QTrap007566_031718-5CRP1.mzML
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QTrap007567_031718-5CRP1.mzML
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QTrap007568_031718-5CRP2.mzML
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QTrap007569_031718-5CRP2.mzML
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QTrap007570_031718-5CRP2.mzML
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QTrap007572_031718-5CRP3.mzML
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QTrap007573_031718-5CRP3.mzML
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QTrap007576_031718-5CRP4.mzML
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QTrap007577_031718-5CRP6.mzML
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QTrap007578_031718-5CRP6.mzML
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QTrap007579_031718-5CRP6.mzML
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QTrap007603_031718-buffer ext.mzML
FILES
QTrap007604_031718-buffer ext.mzML
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QTrap007605_031718-buffer ext.mzML
FILES
QTrap007607_032118-Blank ext.mzML
FILES
QTrap007608_032118-STD ext.mzML
FILES
QTrap007609_032118-Unst1_SN.mzML
FILES
QTrap007610_032118-Unst1_SN.mzML
FILES
QTrap007611_032118-Unst1_SN.mzML
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QTrap007612_032118-Unst2_SN.mzML
FILES
QTrap007613_032118-Unst2_SN.mzML
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QTrap007614_032118-Unst2_SN.mzML
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QTrap007615_032118-Unst3_SN.mzML
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QTrap007616_032118-Unst3_SN.mzML
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QTrap007617_032118-Unst3_SN.mzML
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QTrap007618_032118-Unst4_SN.mzML
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QTrap007619_032118-Unst4_SN.mzML
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QTrap007620_032118-Unst4_SN.mzML
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QTrap007621_032118-Unst6_SN.mzML
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QTrap007622_032118-Unst6_SN.mzML
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QTrap007623_032118-Unst6_SN.mzML
FILES
QTrap007627_032118-Blank ext.mzML
FILES
QTrap007628_032118-STD ext.mzML
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QTrap007629_032118-0.01Thr1_SN.mzML
FILES
QTrap007630_032118-0.01Thr1_SN.mzML
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QTrap007631_032118-0.01Thr1_SN.mzML
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QTrap007632_032118-0.01Thr2_SN.mzML
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QTrap007633_032118-0.01Thr2_SN.mzML
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QTrap007634_032118-0.01Thr2_SN.mzML
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QTrap007635_032118-0.01Thr3_SN.mzML
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QTrap007636_032118-0.01Thr3_SN.mzML
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QTrap007637_032118-0.01Thr3_SN.mzML
FILES
QTrap007638_032118-0.01Thr4_SN.mzML
FILES
QTrap007639_032118-0.01Thr4_SN.mzML
FILES
QTrap007640_032118-0.01Thr4_SN.mzML
FILES
QTrap007641_032118-0.01Thr6_SN.mzML
FILES
QTrap007642_032118-0.01Thr6_SN.mzML
FILES
QTrap007643_032118-0.01Thr6_SN.mzML
FILES
QTrap007647_032118-Blank ext.mzML
FILES
QTrap007648_032118-STD ext.mzML
FILES
QTrap007649_032118-1Thr1_SN.mzML
FILES
QTrap007650_032118-1Thr1_SN.mzML
FILES
QTrap007651_032118-1Thr1_SN.mzML
FILES
QTrap007652_032118-1Thr2_SN.mzML
FILES
QTrap007653_032118-1Thr2_SN.mzML
FILES
QTrap007654_032118-1Thr2_SN.mzML
FILES
QTrap007655_032118-1Thr3_SN.mzML
FILES
QTrap007656_032118-1Thr3_SN.mzML
FILES
QTrap007657_032118-1Thr3_SN.mzML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  8%|▊         | 139/1674 [17:02<5:42:17, 13.38s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  8%|▊         | 140/1674 [17:09<4:52:25, 11.44s/it]
QTrap007658_032118-1Thr4_SN.mzML
FILES
QTrap007659_032118-1Thr4_SN.mzML
FILES
QTrap007660_032118-1Thr4_SN.mzML
FILES
QTrap007661_032118-1Thr6_SN.mzML
FILES
QTrap007662_032118-1Thr6_SN.mzML
FILES
QTrap007663_032118-1Thr6_SN.mzML
FILES
QTrap007667_032118-Blank ext.mzML
FILES
QTrap007668_032118-STD ext.mzML
FILES
QTrap007669_032118-1CRP1_SN.mzML
FILES
QTrap007670_032118-1CRP1_SN.mzML
FILES
QTrap007671_032118-1CRP1_SN.mzML
FILES
QTrap007672_032118-1CRP2_SN.mzML
FILES
QTrap007673_032118-1CRP2_SN.mzML
FILES
QTrap007674_032118-1CRP2_SN.mzML
FILES
QTrap007675_032118-1CRP3_SN.mzML
FILES
QTrap007676_032118-1CRP3_SN.mzML
FILES
QTrap007677_032118-1CRP3_SN.mzML
FILES
QTrap007678_032118-1CRP4_SN.mzML
FILES
QTrap007679_032118-1CRP4_SN.mzML
FILES
QTrap007680_032118-1CRP4_SN.mzML
FILES
QTrap007681_032118-1CRP6_SN.mzML
FILES
QTrap007682_032118-1CRP6_SN.mzML
FILES
QTrap007683_032118-1CRP6_SN.mzML
FILES
QTrap007687_032218-Blank ext.mzML
FILES
QTrap007688_032218-STD ext.mzML
FILES
QTrap007689_032218-5CRP1_SN.mzML
FILES
QTrap007690_032218-5CRP1_SN.mzML
FILES
QTrap007691_032218-5CRP1_SN.mzML
FILES
QTrap007692_032218-5CRP2_SN.mzML
FILES
QTrap007693_032218-5CRP2_SN.mzML
FILES
QTrap007694_032218-5CRP2_SN.mzML
FILES
QTrap007695_032218-5CRP3_SN.mzML
FILES
QTrap007696_032218-5CRP3_SN.mzML
FILES
QTrap007697_032218-5CRP3_SN.mzML
FILES
QTrap007698_032218-5CRP4_SN.mzML
FILES
QTrap007699_032218-5CRP4_SN.mzML
FILES
QTrap007700_032218-5CRP4_SN.mzML
FILES
QTrap007701_032218-5CRP6_SN.mzML
FILES
QTrap007702_032218-5CRP6_SN.mzML
FILES
QTrap007703_032218-5CRP6_SN.mzML
FILES
QTrap007727_032218-buffer ext.mzML
FILES
QTrap007728_032218-buffer ext.mzML
FILES
QTrap007729_032218-buffer ext.mzML
FILES
QTrap007730_032318-0.01Thr4.mzML
FILES
QTrap007731_032318-5CRP6.mzML
FILES
QTrap007732_032318-1CRP6_SN.mzML
FILES
QTrap007733_032318-5CRP6_SN.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Concentration
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Protocol REF
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_Sample extract
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 20
Returning 160 rows!
Added 160 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1382
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QExHF03_HPLC_0000193.mzML
FILES
QExHF03_HPLC_0000194.mzML
FILES
QExHF03_HPLC_0000195.mzML
FILES
QExHF03_HPLC_0000196.mzML
FILES
QExHF03_HPLC_0000197.mzML
FILES
QExHF03_HPLC_0000198.mzML
FILES
QExHF03_HPLC_0000199.mzML
FILES
QExHF03_HPLC_0000200.mzML
FILES
QExHF03_HPLC_0000201.mzML
FILES
QExHF03_HPLC_0000202.mzML
FILES
QExHF03_HPLC_0000203.mzML
FILES
QExHF03_HPLC_0000204.mzML
FILES
QExHF03_HPLC_0000205.mzML
FILES
QExHF03_HPLC_0000206.mzML
FILES
QExHF03_HPLC_0000207.mzML
FILES
QExHF03_HPLC_0000208.mzML
FILES
QExHF03_HPLC_0000209.mzML
FILES
QExHF03_HPLC_0000213.mzML
FILES
QExHF03_HPLC_0000214.mzML
FILES
QExHF03_HPLC_0000215.mzML
FILES
QExHF03_HPLC_0000216.mzML
FILES
QExHF03_HPLC_0000217.mzML
FILES
QExHF03_HPLC_0000218.mzML
FILES
QExHF03_HPLC_0000219.mzML
FILES
QExHF03_HPLC_0000220.mzML
FILES
QExHF03_HPLC_0000221.mzML
FILES
QExHF03_HPLC_0000222.mzML
FILES
QExHF03_HPLC_0000223.mzML
FILES
QExHF03_HPLC_0000224.mzML
FILES
QExHF03_HPLC_0000225.mzML
FILES
QExHF03_HPLC_0000226.mzML
FILES
QExHF03_HPLC_0000227.mzML
FILES
QExHF03_HPLC_0000228.mzML
FILES
QExHF03_HPLC_0000229.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Concentration
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Protocol REF
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_Sample extract
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1383/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  8%|▊         | 141/1674 [17:14<3:59:13,  9.36s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

  8%|▊         | 142/1674 [17:22<3:51:10,  9.05s/it]
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap XL: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
141204_KUY001_ESI_n.raw
FILES
141204_KUY002_ESI_n.raw
FILES
141204_KUY003_ESI_n.raw
FILES
141204_KUY004_ESI_n.raw
FILES
141204_KUY005_ESI_n.raw
FILES
141204_KUY006_ESI_n.raw
FILES
141204_KUY007_ESI_n.raw
FILES
141204_KUY008_ESI_n.raw
FILES
141204_KUY009_ESI_n.raw
FILES
141204_KUY010_ESI_n.raw
FILES
141204_KUY011_ESI_n.raw
FILES
141204_KUY012_ESI_n.raw
FILES
141204_KUYmock_n1_ESI_n.raw
FILES
141204_KUYmock_n2_ESI_n.raw
FILES
141204_KUYmock_n3_ESI_n.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Time point
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1386
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
EQC1.1.raw
FILES
EQC1.2.raw
FILES
EQC1.3.raw
FILES
EQC2.1.raw
FILES
EQC2.2.raw
FILES
EQC2.3.raw
FILES
IQC1 pool.1.raw
FILES
IQC1 pool.2.raw
FILES
IQC1 pool.3.raw
FILES
IQC2 pool.1.raw
FILES
IQC2 pool.2.raw
FILES
IQC2 pool.3.raw
FILES
MeOH.raw
FILES
MeOH_2.raw
FILES
STD 1ng-µl.2.raw
FILES
STD 1ng-µl.raw
FILES
Sepsis 24h 2.raw
FILES
Sepsis 24h 3.raw
FILES
Sepsis 24h 4.raw
FILES
Sepsis 24h 5.raw
FILES
Sepsis 24h 6.raw
FILES
Sepsis 24h 7.raw
FILES
Sepsis 24h 8.raw
FILES
Sepsis 6h 1.raw
FILES
Sepsis 6h 2.raw
FILES
Sepsis 6h 3.raw
FILES
Sepsis 6h 4.raw
FILES
Sepsis 6h 5.raw
FILES
Sham 24h 1.raw
FILES
Sham 24h 2.raw
FILES
Sham 24h 3.raw
FILES
Sham 24h 4.raw
FILES
Sham 24h 5.raw
FILES
Sham 24h 6.raw
FILES
Sham 24h 7.raw
FILES
Sham 24h 8.raw
FILES
Sham 6h 1.raw
FILES
Sham 6h 2.raw
FILES
Sham 6h 3.raw
FILES
Sham 6h 4.raw
FILES
Sham 6h 5.raw
FILES
Sham 6h 6.raw
FILES
Sham 6h 7.raw
FILES
Sham 6h 8.raw
IGNORED:  Samples_Operation
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Collection timepoint
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1390
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
0_1.mzXML
FILES
0_1_neg.mzXML
FILES
0_2.mzXML
FILES
0_2_neg.mzXML
FILES
0_3.mzXML
FILES
0_3_neg.mzXML
FILES
0_4.mzXML
FILES
0_4_neg.mzXML
FILES
2_1.mzXML
FILES
2_1_neg.mzXML
FILES
2_2.mzXML
FILES
2_2_neg.mzXML
FILES
2_3.mzXML
FILES
2_3_neg.mzXML
FILES
2_4.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  9%|▊         | 143/1674 [17:29<3:31:44,  8.30s/it]
FILES
2_4_neg.mzXML
FILES
4_1.mzXML
FILES
4_1_neg.mzXML
FILES
4_2.mzXML
FILES
4_2_neg.mzXML
FILES
4_3.mzXML
FILES
4_3_neg.mzXML
FILES
4_4.mzXML
FILES
4_4_neg.mzXML
FILES
6_1.mzXML
FILES
6_1_neg.mzXML
FILES
6_2.mzXML
FILES
6_2_neg.mzXML
FILES
6_3.mzXML
FILES
6_3_neg.mzXML
FILES
6_4.mzXML
FILES
6_4_neg.mzXML
FILES
8_1.mzXML
FILES
8_1_neg.mzXML
FILES
8_2.mzXML
FILES
8_2_neg.mzXML
FILES
8_3.mzXML
FILES
8_3_neg.mzXML
FILES
8_4.mzXML
FILES
8_4_neg.mzXML
FILES
FRAG_NEG.mzml
FILES
FRAG_POS.mzml
FILES
matrix_blank1.mzxml
FILES
matrix_blank1_neg.mzxml
FILES
matrix_blank2.mzxml
FILES
matrix_blank2_neg.mzxml
FILES
matrix_blank3.mzxml
FILES
matrix_blank3_neg.mzxml
FILES
matrix_blank4.mzxml
FILES
matrix_blank4_neg.mzxml
FILES
matrix_blank5.mzxml
FILES
matrix_blank5_neg.mzxml
FILES
matrix_blank6.mzxml
FILES
matrix_blank6_neg.mzxml
FILES
pooled_10.mzxml
FILES
pooled_10_neg.mzxml
FILES
pooled_11.mzxml
FILES
pooled_11_neg.mzxml
FILES
pooled_12.mzxml
FILES
pooled_12_neg.mzxml
FILES
pooled_7.mzxml
FILES
pooled_7_neg.mzxml
FILES
pooled_8.mzxml
FILES
pooled_8_neg.mzxml
FILES
pooled_9.mzxml
FILES
pooled_9_neg.mzxml
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Induction
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 66 rows!
Added 66 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1396
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 7000D Triple Quadrupole: missing value
  Waters Xevo G2-S QTof: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
  electron ionization (negative): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
IBS_GCMS_biopsies
541-1.D
FILES
IBS_GCMS_biopsies
541-2 R.D
FILES
IBS_GCMS_biopsies
542-1.D
FILES
IBS_GCMS_biopsies
544-1.D
FILES
IBS_GCMS_biopsies
544-2.D
FILES
IBS_GCMS_biopsies
547-1.D
FILES
IBS_GCMS_biopsies
547-2.D
FILES
IBS_GCMS_biopsies
548-1.D
FILES
IBS_GCMS_biopsies
548-2 R.D
FILES
IBS_GCMS_biopsies
549-1.D
FILES
IBS_GCMS_biopsies
549-2.D
FILES
IBS_GCMS_biopsies
554-1.D
FILES
IBS_GCMS_biopsies
554_unknown.D
FILES
IBS_GCMS_biopsies
556-1.D
FILES
IBS_GCMS_biopsies
556-2 R.D
FILES
IBS_GCMS_biopsies
557-1.D
FILES
IBS_GCMS_biopsies
557-2.D
FILES
IBS_GCMS_biopsies
558-1.D
FILES
IBS_GCMS_biopsies
559-2 R.D
FILES
IBS_GCMS_biopsies
561-1.D
FILES
IBS_GCMS_biopsies
561-2 R.D
FILES
IBS_GCMS_biopsies
562-1.D
FILES
IBS_GCMS_biopsies
562-2.D
FILES
IBS_GCMS_biopsies
563-1 R.D
FILES
IBS_GCMS_biopsies
563-2.D
FILES
IBS_GCMS_biopsies
564-1.D
FILES
IBS_GCMS_biopsies
564-2 R.D
FILES
IBS_GCMS_biopsies
565-1.D
FILES
IBS_GCMS_biopsies
565-2 R.D
FILES
IBS_GCMS_biopsies
566-1.D
FILES
IBS_GCMS_biopsies
567-1.D
FILES
IBS_GCMS_biopsies
567-2 R.D
FILES
IBS_GCMS_biopsies
569-1.D
FILES
IBS_GCMS_biopsies
569-2.D
FILES
IBS_GCMS_biopsies
572-1.D
FILES
IBS_GCMS_biopsies
572-2.D
FILES
IBS_GCMS_biopsies
578-1.D
FILES
IBS_GCMS_biopsies
578-2.D
FILES
IBS_GCMS_biopsies
581-1.D
FILES
IBS_GCMS_biopsies
581-2.D
FILES
IBS_GCMS_biopsies
583-1 R.D
FILES
IBS_GCMS_biopsies
584-1 R.D
FILES
IBS_GCMS_biopsies
584-2.D
FILES
IBS_GCMS_biopsies
587-2.D
FILES
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Time point
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_UNIT
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 47
Returning 644 rows!
Added 644 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1399
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G2 HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
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IGNORED:  extension
IGNORED:  Samples_Timepoint/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  9%|▊         | 145/1674 [17:59<4:52:50, 11.49s/it]
  9%|▊         | 146/1674 [18:01<3:42:53,  8.75s/it]
IGNORED:  Is Organ
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Term Accession Number.10
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IGNORED:  Samples_Gene knockout
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IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 16
Returning 204 rows!
Added 204 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS14
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1402
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap XL: missing value
  Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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20170726_QEX_synchronized_rep3_140min.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Group
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Organism synonym
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 252 rows!
Added 252 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1405
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G2-Si HDMS: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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  9%|▉         | 148/1674 [18:40<6:17:12, 14.83s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
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See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
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Holstiline_50_70_30.mzXML
FILES
Ibogaine.mzXML
FILES
Ibogaine_50_70_30.mzXML
FILES
Ibogamine.mzXML
FILES
Ibogamine_50_70_30.mzXML
FILES
Iboxygaine.mzXML
FILES
Iboxygaine_50_70_30.mzXML
FILES
Icajine.mzXML
FILES
Icajine_50_70_30.mzXML
FILES
Isomalindine.mzXML
FILES
Isomalindine_50_70_30.mzXML
FILES
Isoretuline.mzXML
FILES
Isoretuline_50_70_30.mzXML
FILES
Isostrychnine.mzXML
FILES
Isostrychnine_50_70_30.mzXML
FILES
Isostrychnopentamine A_50_70_30.mzXML
FILES
Isostrychnopentamine_A.mzXML
FILES
Isosungucine.mzXML
FILES
Isosungucine_50_70_30.mzXML
FILES
Lanciferine.mzXML
FILES
Lanciferine_50_70_30.mzXML
FILES
Leuconolam.mzXML
FILES
Leuconolam_50_70_30.mzXML
FILES
Leucoridine A_50_70_30.mzXML
FILES
Leucoridine_A.mzXML
FILES
Lundurine A_50_70_30.mzXML
FILES
Lundurine_A.mzXML
FILES
Malindine.mzXML
FILES
Malindine_50_70_30.mzXML
FILES
Melosuavine E_50_70_30.mzXML
FILES
Melosuavine_E.mzXML
FILES
Methuenine.mzXML
FILES
Methuenine_50_70_30.mzXML
FILES
Methyle reserpate.mzXML
FILES
Methyle reserpate_50_70_30.mzXML
FILES
Mitrinermine.mzXML
FILES
Mitrinermine_50_70_30.mzXML
FILES
N4-methylantirhine_50_70_30.mzXML
FILES
N4_methylantirhine.mzXML
FILES
Naucleidinal.mzXML
FILES
Naucleidinal_50_70_30.mzXML
FILES
Naulafine.mzXML
FILES
Naulafine_50_70_30.mzXML
FILES
Nb-methylusambarensine_50_70_30.mzXML
FILES
Nb_methylusambarensine.mzXML
FILES
Novacine.mzXML
FILES
Novacine_50_70_30.mzXML
FILES
O-methylgeissolaevine_50_70_30.mzXML
FILES
O-trimethoxy-3,4,5-benzoyl-OH-vincamajine_50_70_30.mzXML
FILES
O_3_4_5_trimethoxycinnamate-OH-vincamajine.mzXML
FILES
O_3_4_5_trimethoxycinnamate-OH-vincamajine_50_70_30.mzXML
FILES
O_methylgeissolaevine.mzXML
FILES
O_trimethoxy_3_4_5_benzoyl_OH_vincamajine.mzXML
FILES
Ochrolifuanine A_50_70_30.mzXML
FILES
Ochrolifuanine_A.mzXML
FILES
Ochropamine.mzXML
FILES
Ochropamine_50_70_30.mzXML
FILES
Ochropposinine.mzXML
FILES
Ochropposinine_50_70_30.mzXML
FILES
Olivacine.mzXML
FILES
Olivacine_50_70_30.mzXML
FILES
Panarine.mzXML
FILES
Panarine_50_70_30.mzXML
FILES
Pandine.mzXML
FILES
Pandine_50_70_30.mzXML
FILES
Pericyclivine.mzXML
FILES
Pericyclivine_50_70_30.mzXML
FILES
Perivine.mzXML
FILES
Perivine_50_70_30.mzXML
FILES
Picraline.mzXML
FILES
Picraline_50_70_30.mzXML
FILES
Pleiocarpamine.mzXML
FILES
Pleiocarpamine_50_70_30.mzXML
FILES
Pleiocarpine.mzXML
FILES
Pleiocarpine_50_70_30.mzXML
FILES
Pleiocarpinilam.mzXML
FILES
Pleiocarpinilam_50_70_30.mzXML
FILES
Pleiocarpinine.mzXML
FILES
Pleiocarpinine_50_70_30.mzXML
FILES
Pleiocarpoline.mzXML
FILES
Pleiocarpoline_50_70_30.mzXML
FILES
Pleiokomenine A_50_70_30.mzXML
FILES
Pleiokomenine B_50_70_30.mzXML
FILES
Pleiokomenine_A.mzXML
FILES
Pleiokomenine_B.mzXML
FILES
Pleiomutine.mzXML
FILES
Pleiomutine_50_70_30.mzXML
FILES
Pleiomutinine.mzXML
FILES
Pleiomutinine_50_70_30.mzXML
FILES
Polyneuridine.mzXML
FILES
Polyneuridine_50_70_30.mzXML
FILES
Protostrychnine.mzXML
FILES
Protostrychnine_50_70_30.mzXML
FILES
Pseudostrychnine.mzXML
FILES
Pseudostrychnine_50_70_30.mzXML
FILES
Pseudoyohimbine.mzXML
FILES
Pseudoyohimbine_50_70_30.mzXML
FILES
Quebrachamine.mzXML
FILES
Quebrachamine_50_70_30.mzXML
FILES
Quebrachidine.mzXML
FILES
Quebrachidine_50_70_30.mzXML
FILES
Quinidine.mzXML
FILES
Quinidine_50_70_30.mzXML
FILES
Raubasine.mzXML
FILES
Raubasine_50_70_30.mzXML
FILES
Rauvomitine.mzXML
FILES
Rauvomitine_50_70_30.mzXML
FILES
Reserpiline.mzXML
FILES
Reserpiline_50_70_30.mzXML
FILES
Reserpine.mzXML
FILES
Reserpine_50_70_30.mzXML
FILES
Retuline.mzXML
FILES
Retuline_50_70_30.mzXML
FILES
Serpentine.mzXML
FILES
Serpentine_50_70_30.mzXML
FILES
Splendoline.mzXML
FILES
Splendoline_50_70_30.mzXML
FILES
Strictosamide.mzXML
FILES
Strictosamide_50_70_30.mzXML
FILES
Strictosidine.mzXML
FILES
Strictosidine_50_70_30.mzXML
FILES
Strychnine.mzXML
FILES
Strychnine_50_70_30.mzXML
FILES
Strychnofoline.mzXML
FILES
Strychnofoline_50_70_30.mzXML
FILES
Strychnogucine A_50_70_30.mzXML
FILES
Strychnogucine C_50_70_30.mzXML
FILES
Strychnogucine_A.mzXML
FILES
Strychnogucine_C.mzXML
FILES
Strychnohexamine.mzXML
FILES
Strychnohexamine_50_70_30.mzXML
FILES
Strychnopentamine.mzXML
FILES
Strychnopentamine_50_70_30.mzXML
FILES
Strychnophylline.mzXML
FILES
Strychnophylline_50_70_30.mzXML
FILES
Sungucine.mzXML
FILES
Sungucine_50_70_30.mzXML
FILES
Tabernaemontanine.mzXML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  9%|▉         | 153/1674 [18:59<2:45:16,  6.52s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

  9%|▉         | 154/1674 [19:09<3:08:08,  7.43s/it]
Tabernaemontanine_50_70_30.mzXML
FILES
Tabernamine.mzXML
FILES
Tabernamine_50_70_30.mzXML
FILES
Tabernanthine.mzXML
FILES
Tabernanthine_50_70_30.mzXML
FILES
Tabersonine.mzXML
FILES
Tabersonine_50_70_30.mzXML
FILES
Trimethoxy-3,4,5-cinnamate-vincamajine_50_70_30.mzXML
FILES
Trimethoxy_3_4_5_cinnamate_vincamajine.mzXML
FILES
Tubotaiwine.mzXML
FILES
Tubotaiwine_50_70_30.mzXML
FILES
Usambarine.mzXML
FILES
Usambarine_50_70_30.mzXML
FILES
Vellosimine.mzXML
FILES
Vellosimine_50_70_30.mzXML
FILES
Villalstonine.mzXML
FILES
Villalstonine_50_70_30.mzXML
FILES
Vinblastine.mzXML
FILES
Vinblastine_50_70_30.mzXML
FILES
Vincamajine.mzXML
FILES
Vincamajine_50_70_30.mzXML
FILES
Vincamine.mzXML
FILES
Vincamine_50_70_30.mzXML
FILES
Vincosamide.mzXML
FILES
Vincosamide_50_70_30.mzXML
FILES
Vindolinine.mzXML
FILES
Vindolinine_50_70_30.mzXML
FILES
Voacalgine A_50_70_30.mzXML
FILES
Voacalgine_A.mzXML
FILES
Voacamine.mzXML
FILES
Voacamine_50_70_30.mzXML
FILES
Voacangine.mzXML
FILES
Voacangine_50_70_30.mzXML
FILES
Voachalotine.mzXML
FILES
Voachalotine_50_70_30.mzXML
FILES
Vobasine.mzXML
FILES
Vobasine_50_70_30.mzXML
FILES
Vobtusine.mzXML
FILES
Vobtusine_50_70_30.mzXML
FILES
Vomicine.mzXML
FILES
Vomicine_50_70_30.mzXML
FILES
Wieland-Gumlich aldehyde_50_70_30.mzXML
FILES
Wieland_Gumlich_aldehyde.mzXML
FILES
Yohimbine.mzXML
FILES
Yohimbine_50_70_30.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Compound origin
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Compound origin part
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 344
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS143
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
  AB SCIEX QTRAP 6500: missing value
ChromatographyAndPhase:
  : missing value
FILES
51803_R001_SPH_PL_ZP05_20120824.wiff
FILES
51803_R002_SPH_LU_ZP05_20120823.wiff
FILES
51803_R003_LU_EC_MRM1_20120823.wiff
FILES
51803_R003_LU_EC_MRM2_20120823.wiff
FILES
51803_R004_GL_LU_20121123.wiff
FILES
51803_R005_CER_LU_20120827.wiff
FILES
51803_R006_CER_PL_20120829.wiff
FILES
51803_R007_SGN_LU_20120828.wiff
FILES
51803_R007_SGP_LU_20120828.wiff
FILES
51803_R008_CER_LI_20120831.wiff
FILES
51803_R009_SGN_PL_20120903.wiff
FILES
51803_R009_SGP_PL_20120903.wiff
FILES
51803_R010_SGN_LI_20120907.wiff
FILES
51803_R010_SGP_LI_20120907.wiff
FILES
51803_R010_TAG_LI_20120912.wiff
FILES
51803_R012_SGN_LI_20121130.wiff
FILES
51803_R012_SGP_LI_20121130.wiff
FILES
51803_R012_TAG_LI_20121205.wiff
FILES
51803_R013_SGN_20121120.wiff
FILES
51803_R013_SGP_20121120.wiff
FILES
51803_R014_SGN_PL_20121126.wiff
FILES
51803_R014_SGP_PL_20121126.wiff
FILES
51803_R016_GL_LU_20121121.wiff
FILES
51803_R018_CER_LI_20121123.wiff
FILES
51803_R019_CER_LU_20121119.wiff
FILES
51803_R020_CER_PL_20121121.wiff
FILES
51803_R021_EC_LU_MRM1_20121115.wiff
FILES
51803_R021_EC_LU_MRM2_20121115.wiff
FILES
51803_R022_SPH_LU_20121115.wiff
FILES
51803_R023_SPH_PL_20121116.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_ExposureDurationPhase2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_TestItemPhase1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_ExposureDurationPhase1
IGNORED:  Samples_TestItemPhase2
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_TreatPhase1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_TreatPhase2
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1432
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  9%|▉         | 155/1674 [19:14<2:50:36,  6.74s/it]
  9%|▉         | 156/1674 [19:15<2:11:29,  5.20s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

  9%|▉         | 157/1674 [19:21<2:18:00,  5.46s/it]
  9%|▉         | 158/1674 [19:23<1:51:02,  4.39s/it]
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker solariX FTMS: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
1.mzXML
FILES
DERIVED_FILES
10.mzXML
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DERIVED_FILES
11.mzXML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 20 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1435
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS144
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
FILES
Mtab_FT_012611_07.RAW
FILES
Mtab_FT_012611_08.RAW
FILES
Mtab_FT_012611_09.RAW
FILES
Mtab_FT_012611_10.RAW
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Mtab_FT_012611_11.RAW
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Mtab_FT_012611_12.RAW
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Mtab_FT_012611_13.RAW
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Mtab_FT_012611_14.RAW
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Mtab_FT_012611_21.RAW
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Mtab_FT_012611_23.RAW
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Mtab_FT_012611_24.RAW
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Mtab_FT_012611_25.RAW
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Mtab_FT_012611_26.RAW
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Mtab_FT_012611_27.RAW
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Mtab_FT_012611_28.RAW
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Mtab_FT_012611_29.RAW
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Mtab_FT_012611_31.RAW
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Mtab_FT_012611_32.RAW
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Mtab_FT_020211_03.RAW
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Mtab_FT_020211_04.RAW
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Mtab_FT_020211_05.RAW
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Mtab_FT_020211_06.RAW
FILES
Mtab_FT_020211_07.RAW
FILES
Mtab_FT_020211_08.RAW
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Mtab_FT_020211_09.RAW
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Mtab_FT_020211_10.RAW
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Mtab_FT_020211_11.RAW
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Mtab_FT_020211_12.RAW
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Mtab_FT_020211_13.RAW
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Mtab_FT_020211_14.RAW
FILES
Mtab_FT_020211_17.RAW
FILES
Mtab_FT_020211_18.RAW
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Mtab_FT_020211_19.RAW
FILES
Mtab_FT_020211_20.RAW
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Mtab_FT_020211_21.RAW
FILES
Mtab_FT_020211_22.RAW
FILES
Mtab_FT_020211_23.RAW
FILES
Mtab_FT_020211_24.RAW
FILES
Mtab_FT_020211_25.RAW
FILES
Mtab_FT_020211_26.RAW
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Mtab_FT_020211_27.RAW
FILES
Mtab_FT_020211_28.RAW
FILES
Mtab_FT_020311_02.RAW
FILES
Mtab_FT_020311_03.RAW
FILES
Mtab_FT_020311_04.RAW
FILES
Mtab_FT_020311_05.RAW
FILES
Mtab_FT_020311_06.RAW
FILES
Mtab_FT_020311_07.RAW
FILES
Mtab_FT_020311_08.RAW
FILES
Mtab_FT_020311_09.RAW
FILES
Mtab_FT_020311_10.RAW
FILES
Mtab_FT_020311_11.RAW
FILES
Mtab_FT_020311_12.RAW
FILES
Mtab_FT_020311_13.RAW
FILES
Mtab_FT_020311_16.RAW
FILES
Mtab_FT_020311_17.RAW
FILES
Mtab_FT_020311_18.RAW
FILES
Mtab_FT_020311_19.RAW
FILES
Mtab_FT_020311_20.RAW
FILES
Mtab_FT_020311_21.RAW
FILES
Mtab_FT_020311_22.RAW
FILES
Mtab_FT_020311_23.RAW
FILES
Mtab_FT_020311_24.RAW
FILES
Mtab_FT_020311_25.RAW
FILES
Mtab_FT_020311_26.RAW
FILES
Mtab_FT_020311_27.RAW
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_control
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_time
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1443
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1446
Request successful!
SampleCollectionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

  9%|▉         | 159/1674 [19:32<2:20:14,  5.55s/it]
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos: missing value
IonizationSourceAndPolarity:
  electron ionization (negative): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Adrenal_Gland_1.raw
FILES
Adrenal_Gland_10.raw
FILES
Adrenal_Gland_11.raw
FILES
Adrenal_Gland_12.raw
FILES
Adrenal_Gland_2.raw
FILES
Adrenal_Gland_3.raw
FILES
Bladder_10.raw
FILES
Bladder_11.raw
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Bladder_12.raw
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Bladder_2.raw
FILES
Bladder_3.raw
FILES
Bladder_4.raw
FILES
Bladder_5.raw
FILES
Cerebellum_1.raw
FILES
Cerebellum_2.raw
FILES
Cerebellum_3.raw
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Cerebrum_1.raw
FILES
Cerebrum_2.raw
FILES
Cerebrum_3.raw
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Colon_1.raw
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Colon_11.raw
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Colon_13.raw
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Colon_2.raw
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Colon_3.raw
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Dilution_1_V0.raw
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Dilution_1_V2.raw
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Dilution_1_V3.raw
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Dilution_1_V4.raw
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Dilution_1_V5.raw
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Dilution_1_V6.raw
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Dilution_1_V7.raw
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Dilution_3_V0.raw
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Dilution_3_V1.raw
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Dilution_3_V2.raw
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Dilution_3_V4.raw
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Dilution_3_V5.raw
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Dilution_3_V6.raw
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Dilution_3_V7.raw
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Dilution_4_V0.raw
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Dilution_4_V1.raw
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Dilution_4_V2.raw
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Dilution_4_V3.raw
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Dilution_4_V5.raw
FILES
Dilution_4_V6.raw
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Dilution_4_V7.raw
FILES
Dilution_5_V2.raw
FILES
Dilution_5_V4.raw
FILES
Duodenum_1.raw
FILES
Duodenum_10.raw
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Duodenum_12.raw
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Duodenum_13.raw
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Duodenum_2.raw
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Duodenum_3.raw
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Heart_1.raw
FILES
Heart_12.raw
FILES
Heart_13.raw
FILES
Heart_2.raw
FILES
Heart_3.raw
FILES
Heart_4.raw
FILES
Heart_5.raw
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Heart_6.raw
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Kidney_1.raw
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Kidney_10.raw
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Kidney_12.raw
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Liver_4.raw
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Lung_10.raw
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Lung_3.raw
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Ovaries_4.raw
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Ovaries_5.raw
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Ovaries_6.raw
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Pancreas_1.raw
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Pancreas_2.raw
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Pancreas_3.raw
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Skeletal_Muscle_1.raw
FILES
Skeletal_Muscle_2.raw
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Skeletal_Muscle_3.raw
FILES
Skeletal_muscle_10.raw
FILES
Skeletal_muscle_12.raw
FILES
Skeletal_muscle_13.raw
FILES
Spleen_1.raw
FILES
Spleen_2.raw
FILES
Spleen_3.raw
FILES
Spleen_6.raw
FILES
Testis_1.raw
FILES
Testis_10.raw
FILES
Testis_11.raw
FILES
Testis_13.raw
FILES
Testis_2.raw
FILES
Testis_3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  Samples_Collection Time Point
Number of rows removed due to not enough metadata: 34
Returning 81 rows!
Added 81 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS145
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QXA01NEG20180409_WEIZ0218VW_MOUSE_MUSCLE1_03.mzML
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FILES
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FILES
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QXA01NEG20180409_WEIZ0218VW_MOUSE_MUSCLE1_17.mzML
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FILES
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QXA01NEG20180409_WEIZ0218VW_MOUSE_MUSCLE2_03.mzML
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QXA07POSLAT20180416_WEIZ0218VW_MOUSE_MUSCLE2_15.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Exercise protocol
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IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
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IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  keep
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IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
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IGNORED:  Assay_Term Source REF.7
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
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IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
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IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
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IGNORED:  Samples_Sample type
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IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
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IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 192 rows!
Added 192 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1452
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1455
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Sample type_2
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Sample type_5
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Sample type_6
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 10%|▉         | 162/1674 [19:55<2:54:24,  6.92s/it]
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Sample type_7
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Sample type_1
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Comment
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Sample type_3
IGNORED:  Samples_Sample type_4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 40
Returning 11 rows!
Added 11 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS146
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos: missing value
  AB SCIEX QTRAP 5500: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Batch number
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Run order
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Pregnancy duration
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Unit.3
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Height
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 10%|▉         | 163/1674 [20:12<4:10:44,  9.96s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 10%|▉         | 164/1674 [20:17<3:35:30,  8.56s/it]
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 634 rows!
Added 634 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1463
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C inert XL MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
021419B-03.CDF
FILES
021419B-04.CDF
FILES
021419B-05.CDF
FILES
021419B-06.CDF
FILES
021419B-07.CDF
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FILES
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FILES
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FILES
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FILES
021419B-31.CDF
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021419B-34.CDF
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021419B-35.CDF
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021419B-36.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 34 rows!
Added 34 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1464
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Phenotype
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
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IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Collection Number
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Batch
IGNORED:  Samples_Term Source REF.2
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 519 rows!
Added 519 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1465
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Focus: missing value
UBERONBodyPartName:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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plasma_HILIC_negative
MTBE_1min_C3.mzML
FILES
plasma_HILIC_negative
MTBE_20min_A.mzML
FILES
plasma_HILIC_negative
MTBE_20min_B.mzML
FILES
plasma_HILIC_negative
MTBE_20min_BLANK.mzML
FILES
plasma_HILIC_negative
MTBE_20min_C1.mzML
FILES
plasma_HILIC_negative
MTBE_20min_C2.mzML
FILES
plasma_HILIC_negative
MTBE_20min_C3.mzML
FILES
plasma_HILIC_negative
MeOH_0_A.mzML
FILES
plasma_HILIC_negative
MeOH_0_B.mzML
FILES
plasma_HILIC_negative
MeOH_0_BLANK.mzML
FILES
plasma_HILIC_negative
MeOH_0_C1.mzML
FILES
plasma_HILIC_negative
MeOH_0_C2.mzML
FILES
plasma_HILIC_negative
MeOH_0_C3.mzML
FILES
plasma_HILIC_negative
MeOH_20C_A.mzML
FILES
plasma_HILIC_negative
MeOH_20C_B.mzML
FILES
plasma_HILIC_negative
MeOH_20C_BLANK.mzML
FILES
plasma_HILIC_negative
MeOH_20C_C1.mzML
FILES
plasma_HILIC_negative
MeOH_20C_C2.mzML
FILES
plasma_HILIC_negative
MeOH_20C_C3.mzML
FILES
plasma_HILIC_negative
MeOH_4C_A.mzML
FILES
plasma_HILIC_negative
MeOH_4C_B.mzML
FILES
plasma_HILIC_negative
MeOH_4C_BLANK.mzML
FILES
plasma_HILIC_negative
MeOH_4C_C1.mzML
FILES
plasma_HILIC_negative
MeOH_4C_C2.mzML
FILES
plasma_HILIC_negative
MeOH_4C_C3.mzML
FILES
plasma_HILIC_negative
QC1.mzML
FILES
plasma_HILIC_negative
QC10.mzML
FILES
plasma_HILIC_negative
QC11.mzML
FILES
plasma_HILIC_negative
QC12.mzML
FILES
plasma_HILIC_negative
QC13.mzML
FILES
plasma_HILIC_negative
QC14.mzML
FILES
plasma_HILIC_negative
QC15.mzML
FILES
plasma_HILIC_negative
QC16.mzML
FILES
plasma_HILIC_negative
QC17_MSMS_70_200.mzML
FILES
plasma_HILIC_negative
QC18_MSMS_200_400.mzML
FILES
plasma_HILIC_negative
QC19_MSMS_400_1000.mzML
FILES
plasma_HILIC_negative
QC2.mzML
FILES
plasma_HILIC_negative
QC3.mzML
FILES
plasma_HILIC_negative
QC4.mzML
FILES
plasma_HILIC_negative
QC5.mzML
FILES
plasma_HILIC_negative
QC6.mzML
FILES
plasma_HILIC_negative
QC7.mzML
FILES
plasma_HILIC_negative
QC8.mzML
FILES
plasma_HILIC_negative
QC9.mzML
FILES
plasma_HILIC_positive
ACN_0_A.mzML
FILES
plasma_HILIC_positive
ACN_0_B.mzML
FILES
plasma_HILIC_positive
ACN_0_BLANK.mzML
FILES
plasma_HILIC_positive
ACN_0_BLANK_01.mzML
FILES
plasma_HILIC_positive
ACN_0_C1.mzML
FILES
plasma_HILIC_positive
ACN_0_C2.mzML
FILES
plasma_HILIC_positive
ACN_0_C3.mzML
FILES
plasma_HILIC_positive
ACN_20C_A.mzML
FILES
plasma_HILIC_positive
ACN_20C_B.mzML
FILES
plasma_HILIC_positive
ACN_20C_BLANK.mzML
FILES
plasma_HILIC_positive
ACN_20C_C1.mzML
FILES
plasma_HILIC_positive
ACN_20C_C2.mzML
FILES
plasma_HILIC_positive
ACN_20C_C3.mzML
FILES
plasma_HILIC_positive
ACN_4C_A.mzML
FILES
plasma_HILIC_positive
ACN_4C_B.mzML
FILES
plasma_HILIC_positive
ACN_4C_BLANK.mzML
FILES
plasma_HILIC_positive
ACN_4C_C1.mzML
FILES
plasma_HILIC_positive
ACN_4C_C2.mzML
FILES
plasma_HILIC_positive
ACN_4C_C3.mzML
FILES
plasma_HILIC_positive
CHCL3_1min_A.mzML
FILES
plasma_HILIC_positive
CHCL3_1min_B.mzML
FILES
plasma_HILIC_positive
CHCL3_1min_BLANK.mzML
FILES
plasma_HILIC_positive
CHCL3_1min_C1.mzML
FILES
plasma_HILIC_positive
CHCL3_1min_C2.mzML
FILES
plasma_HILIC_positive
CHCL3_1min_C3.mzML
FILES
plasma_HILIC_positive
CHCL3_20min_A.mzML
FILES
plasma_HILIC_positive
CHCL3_20min_B.mzML
FILES
plasma_HILIC_positive
CHCL3_20min_BLANK.mzML
FILES
plasma_HILIC_positive
CHCL3_20min_C1.mzML
FILES
plasma_HILIC_positive
CHCL3_20min_C2.mzML
FILES
plasma_HILIC_positive
CHCL3_20min_C3.mzML
FILES
plasma_HILIC_positive
DCM_1min_A.mzML
FILES
plasma_HILIC_positive
DCM_1min_B.mzML
FILES
plasma_HILIC_positive
DCM_1min_BLANK.mzML
FILES
plasma_HILIC_positive
DCM_1min_C1.mzML
FILES
plasma_HILIC_positive
DCM_1min_C2.mzML
FILES
plasma_HILIC_positive
DCM_1min_C3.mzML
FILES
plasma_HILIC_positive
DCM_20min_A.mzML
FILES
plasma_HILIC_positive
DCM_20min_B.mzML
FILES
plasma_HILIC_positive
DCM_20min_BLANK.mzML
FILES
plasma_HILIC_positive
DCM_20min_C1.mzML
FILES
plasma_HILIC_positive
DCM_20min_C2.mzML
FILES
plasma_HILIC_positive
DCM_20min_C3.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_0_A.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_0_B.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_0_BLANK.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_0_C1.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_0_C2.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_0_C3.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_20C_A.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_20C_B.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_20C_BLANK.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_20C_C1.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_20C_C2.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_20C_C3.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_4C_A.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_4C_B.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_4C_BLANK.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_4C_C1.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_4C_C2.mzML
FILES
plasma_HILIC_positive
MEOH_ACN_4C_C3.mzML
FILES
plasma_HILIC_positive
MTBE_1min_A.mzML
FILES
plasma_HILIC_positive
MTBE_1min_B.mzML
FILES
plasma_HILIC_positive
MTBE_1min_BLANK.mzML
FILES
plasma_HILIC_positive
MTBE_1min_C1.mzML
FILES
plasma_HILIC_positive
MTBE_1min_C2.mzML
FILES
plasma_HILIC_positive
MTBE_1min_C3.mzML
FILES
plasma_HILIC_positive
MTBE_20min_A.mzML
FILES
plasma_HILIC_positive
MTBE_20min_B.mzML
FILES
plasma_HILIC_positive
MTBE_20min_BLANK.mzML
FILES
plasma_HILIC_positive
MTBE_20min_C1.mzML
FILES
plasma_HILIC_positive
MTBE_20min_C2.mzML
FILES
plasma_HILIC_positive
MTBE_20min_C3.mzML
FILES
plasma_HILIC_positive
MeOH_0_A.mzML
FILES
plasma_HILIC_positive
MeOH_0_B.mzML
FILES
plasma_HILIC_positive
MeOH_0_BLANK.mzML
FILES
plasma_HILIC_positive
MeOH_0_C1.mzML
FILES
plasma_HILIC_positive
MeOH_0_C2.mzML
FILES
plasma_HILIC_positive
MeOH_0_C3.mzML
FILES
plasma_HILIC_positive
MeOH_20C_A.mzML
FILES
plasma_HILIC_positive
MeOH_20C_B.mzML
FILES
plasma_HILIC_positive
MeOH_20C_BLANK.mzML
FILES
plasma_HILIC_positive
MeOH_20C_C1.mzML
FILES
plasma_HILIC_positive
MeOH_20C_C2.mzML
FILES
plasma_HILIC_positive
MeOH_20C_C3.mzML
FILES
plasma_HILIC_positive
MeOH_4C_A.mzML
FILES
plasma_HILIC_positive
MeOH_4C_B.mzML
FILES
plasma_HILIC_positive
MeOH_4C_BLANK.mzML
FILES
plasma_HILIC_positive
MeOH_4C_C1.mzML
FILES
plasma_HILIC_positive
MeOH_4C_C2.mzML
FILES
plasma_HILIC_positive
MeOH_4C_C3.mzML
FILES
plasma_HILIC_positive
QC1.mzML
FILES
plasma_HILIC_positive
QC10.mzML
FILES
plasma_HILIC_positive
QC11.mzML
FILES
plasma_HILIC_positive
QC12.mzML
FILES
plasma_HILIC_positive
QC13.mzML
FILES
plasma_HILIC_positive
QC14.mzML
FILES
plasma_HILIC_positive
QC15.mzML
FILES
plasma_HILIC_positive
QC16.mzML
FILES
plasma_HILIC_positive
QC17.mzML
FILES
plasma_HILIC_positive
QC18.mzML
FILES
plasma_HILIC_positive
QC19.mzML
FILES
plasma_HILIC_positive
QC2.mzML
FILES
plasma_HILIC_positive
QC20.mzML
FILES
plasma_HILIC_positive
QC21.mzML
FILES
plasma_HILIC_positive
QC22.mzML
FILES
plasma_HILIC_positive
QC23_MSMS_70_200.mzML
FILES
plasma_HILIC_positive
QC24_MSMS_200_400.mzML
FILES
plasma_HILIC_positive
QC25_MSMS_400_1000.mzML
FILES
plasma_HILIC_positive
QC3.mzML
FILES
plasma_HILIC_positive
QC4.mzML
FILES
plasma_HILIC_positive
QC5.mzML
FILES
plasma_HILIC_positive
QC9.mzML
FILES
plasma_RP_lipids_negative
ACN_0_A.mzML
FILES
plasma_RP_lipids_negative
ACN_0_B.mzML
FILES
plasma_RP_lipids_negative
ACN_0_BLANK.mzML
FILES
plasma_RP_lipids_negative
ACN_0_C1.mzML
FILES
plasma_RP_lipids_negative
ACN_0_C2.mzML
FILES
plasma_RP_lipids_negative
ACN_0_C3.mzML
FILES
plasma_RP_lipids_negative
ACN_20C_A.mzML
FILES
plasma_RP_lipids_negative
ACN_20C_B.mzML
FILES
plasma_RP_lipids_negative
ACN_20C_BLANK.mzML
FILES
plasma_RP_lipids_negative
ACN_20C_C1.mzML
FILES
plasma_RP_lipids_negative
ACN_20C_C2.mzML
FILES
plasma_RP_lipids_negative
ACN_20C_C3.mzML
FILES
plasma_RP_lipids_negative
ACN_4C_A.mzML
FILES
plasma_RP_lipids_negative
ACN_4C_B.mzML
FILES
plasma_RP_lipids_negative
ACN_4C_BLANK.mzML
FILES
plasma_RP_lipids_negative
ACN_4C_C1.mzML
FILES
plasma_RP_lipids_negative
ACN_4C_C2.mzML
FILES
plasma_RP_lipids_negative
ACN_4C_C3.mzML
FILES
plasma_RP_lipids_negative
CHCL3_1min_A.mzML
FILES
plasma_RP_lipids_negative
CHCL3_1min_B.mzML
FILES
plasma_RP_lipids_negative
CHCL3_1min_BLANK.mzML
FILES
plasma_RP_lipids_negative
CHCL3_1min_C1.mzML
FILES
plasma_RP_lipids_negative
CHCL3_1min_C2.mzML
FILES
plasma_RP_lipids_negative
CHCL3_1min_C3.mzML
FILES
plasma_RP_lipids_negative
CHCL3_20min_A.mzML
FILES
plasma_RP_lipids_negative
CHCL3_20min_B.mzML
FILES
plasma_RP_lipids_negative
CHCL3_20min_BLANK.mzML
FILES
plasma_RP_lipids_negative
CHCL3_20min_C1.mzML
FILES
plasma_RP_lipids_negative
CHCL3_20min_C2.mzML
FILES
plasma_RP_lipids_negative
CHCL3_20min_C3.mzML
FILES
plasma_RP_lipids_negative
DCM_1min_A.mzML
FILES
plasma_RP_lipids_negative
DCM_1min_B.mzML
FILES
plasma_RP_lipids_negative
DCM_1min_BLANK.mzML
FILES
plasma_RP_lipids_negative
DCM_1min_C1.mzML
FILES
plasma_RP_lipids_negative
DCM_1min_C2.mzML
FILES
plasma_RP_lipids_negative
DCM_1min_C3.mzML
FILES
plasma_RP_lipids_negative
DCM_20min_A.mzML
FILES
plasma_RP_lipids_negative
DCM_20min_B.mzML
FILES
plasma_RP_lipids_negative
DCM_20min_BLANK.mzML
FILES
plasma_RP_lipids_negative
DCM_20min_C1.mzML
FILES
plasma_RP_lipids_negative
DCM_20min_C2.mzML
FILES
plasma_RP_lipids_negative
DCM_20min_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_0_A.mzML
FILES
plasma_RP_lipids_negative
IPA_0_B.mzML
FILES
plasma_RP_lipids_negative
IPA_0_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_0_BLANK_01.mzML
FILES
plasma_RP_lipids_negative
IPA_0_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_0_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_0_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_20C_A.mzML
FILES
plasma_RP_lipids_negative
IPA_20C_B.mzML
FILES
plasma_RP_lipids_negative
IPA_20C_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_20C_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_20C_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_20C_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_4C_A.mzML
FILES
plasma_RP_lipids_negative
IPA_4C_B.mzML
FILES
plasma_RP_lipids_negative
IPA_4C_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_4C_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_4C_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_4C_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_0_A.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_0_B.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_0_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_0_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_0_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_0_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_20C_A.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_20C_B.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_20C_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_20C_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_20C_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_20C_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_4C_A.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_4C_B.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_4C_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_4C_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_4C_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_25_75_4C_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_0_A.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_0_B.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_0_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_0_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_0_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_0_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_20C_A.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_20C_B.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_20C_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_20C_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_20C_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_20C_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_4C_A.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_4C_B.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_4C_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_4C_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_4C_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_50_50_4C_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_0_A.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_0_B.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_0_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_0_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_0_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_0_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_20C_A.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_20C_B.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_20C_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_20C_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_20C_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_20C_C3.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_4C_A.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_4C_B.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_4C_BLANK.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_4C_C1.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_4C_C2.mzML
FILES
plasma_RP_lipids_negative
IPA_ACN_75_25_4C_C3.mzML
FILES
plasma_RP_lipids_negative
MTBE_1min_A.mzML
FILES
plasma_RP_lipids_negative
MTBE_1min_B.mzML
FILES
plasma_RP_lipids_negative
MTBE_1min_BLANK.mzML
FILES
plasma_RP_lipids_negative
MTBE_1min_C1.mzML
FILES
plasma_RP_lipids_negative
MTBE_1min_C2.mzML
FILES
plasma_RP_lipids_negative
MTBE_1min_C3.mzML
FILES
plasma_RP_lipids_negative
MTBE_20min_A.mzML
FILES
plasma_RP_lipids_negative
MTBE_20min_B.mzML
FILES
plasma_RP_lipids_negative
MTBE_20min_BLANK.mzML
FILES
plasma_RP_lipids_negative
MTBE_20min_C1.mzML
FILES
plasma_RP_lipids_negative
MTBE_20min_C2.mzML
FILES
plasma_RP_lipids_negative
MTBE_20min_C3.mzML
FILES
plasma_RP_lipids_negative
QC1.mzML
FILES
plasma_RP_lipids_negative
QC10.mzML
FILES
plasma_RP_lipids_negative
QC11.mzML
FILES
plasma_RP_lipids_negative
QC12.mzML
FILES
plasma_RP_lipids_negative
QC13.mzML
FILES
plasma_RP_lipids_negative
QC14.mzML
FILES
plasma_RP_lipids_negative
QC15.mzML
FILES
plasma_RP_lipids_negative
QC16.mzML
FILES
plasma_RP_lipids_negative
QC17.mzML
FILES
plasma_RP_lipids_negative
QC18.mzML
FILES
plasma_RP_lipids_negative
QC19.mzML
FILES
plasma_RP_lipids_negative
QC2.mzML
FILES
plasma_RP_lipids_negative
QC20.mzML
FILES
plasma_RP_lipids_negative
QC21.mzML
FILES
plasma_RP_lipids_negative
QC22.mzML
FILES
plasma_RP_lipids_negative
QC3.mzML
FILES
plasma_RP_lipids_negative
QC4.mzML
FILES
plasma_RP_lipids_negative
QC5.mzML
FILES
plasma_RP_lipids_negative
QC6_MSMS_100_300.mzML
FILES
plasma_RP_lipids_negative
QC7_MSMS_300_600.mzML
FILES
plasma_RP_lipids_negative
QC8_MSMS_600_1500.mzML
FILES
plasma_RP_lipids_negative
QC9.mzML
FILES
plasma_RP_lipids_positive
ACN_0_A.mzML
FILES
plasma_RP_lipids_positive
ACN_0_B.mzML
FILES
plasma_RP_lipids_positive
ACN_0_BLANK.mzML
FILES
plasma_RP_lipids_positive
ACN_0_C1.mzML
FILES
plasma_RP_lipids_positive
ACN_0_C2.mzML
FILES
plasma_RP_lipids_positive
ACN_0_C3.mzML
FILES
plasma_RP_lipids_positive
ACN_20C_A.mzML
FILES
plasma_RP_lipids_positive
ACN_20C_B.mzML
FILES
plasma_RP_lipids_positive
ACN_20C_BLANK.mzML
FILES
plasma_RP_lipids_positive
ACN_20C_C1.mzML
FILES
plasma_RP_lipids_positive
ACN_20C_C2.mzML
FILES
plasma_RP_lipids_positive
ACN_20C_C3.mzML
FILES
plasma_RP_lipids_positive
ACN_4C_A.mzML
FILES
plasma_RP_lipids_positive
ACN_4C_B.mzML
FILES
plasma_RP_lipids_positive
ACN_4C_BLANK.mzML
FILES
plasma_RP_lipids_positive
ACN_4C_C1.mzML
FILES
plasma_RP_lipids_positive
ACN_4C_C2.mzML
FILES
plasma_RP_lipids_positive
ACN_4C_C3.mzML
FILES
plasma_RP_lipids_positive
CHCL3_1min_A.mzML
FILES
plasma_RP_lipids_positive
CHCL3_1min_B.mzML
FILES
plasma_RP_lipids_positive
CHCL3_1min_BLANK.mzML
FILES
plasma_RP_lipids_positive
CHCL3_1min_C1.mzML
FILES
plasma_RP_lipids_positive
CHCL3_1min_C2.mzML
FILES
plasma_RP_lipids_positive
CHCL3_1min_C3.mzML
FILES
plasma_RP_lipids_positive
CHCL3_20min_A.mzML
FILES
plasma_RP_lipids_positive
CHCL3_20min_B.mzML
FILES
plasma_RP_lipids_positive
CHCL3_20min_BLANK.mzML
FILES
plasma_RP_lipids_positive
CHCL3_20min_C1.mzML
FILES
plasma_RP_lipids_positive
CHCL3_20min_C2.mzML
FILES
plasma_RP_lipids_positive
CHCL3_20min_C3.mzML
FILES
plasma_RP_lipids_positive
DCM_1min_A.mzML
FILES
plasma_RP_lipids_positive
DCM_1min_B.mzML
FILES
plasma_RP_lipids_positive
DCM_1min_BLANK.mzML
FILES
plasma_RP_lipids_positive
DCM_1min_C1.mzML
FILES
plasma_RP_lipids_positive
DCM_1min_C2.mzML
FILES
plasma_RP_lipids_positive
DCM_1min_C3.mzML
FILES
plasma_RP_lipids_positive
DCM_20min_A.mzML
FILES
plasma_RP_lipids_positive
DCM_20min_B.mzML
FILES
plasma_RP_lipids_positive
DCM_20min_BLANK.mzML
FILES
plasma_RP_lipids_positive
DCM_20min_C1.mzML
FILES
plasma_RP_lipids_positive
DCM_20min_C2.mzML
FILES
plasma_RP_lipids_positive
DCM_20min_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_0_A.mzML
FILES
plasma_RP_lipids_positive
IPA_0_B.mzML
FILES
plasma_RP_lipids_positive
IPA_0_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_0_BLANK_01.mzML
FILES
plasma_RP_lipids_positive
IPA_0_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_0_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_0_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_20C_A.mzML
FILES
plasma_RP_lipids_positive
IPA_20C_B.mzML
FILES
plasma_RP_lipids_positive
IPA_20C_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_20C_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_20C_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_20C_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_4C_A.mzML
FILES
plasma_RP_lipids_positive
IPA_4C_B.mzML
FILES
plasma_RP_lipids_positive
IPA_4C_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_4C_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_4C_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_4C_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_0_A.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_0_B.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_0_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_0_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_0_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_0_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_20C_A.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_20C_B.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_20C_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_20C_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_20C_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_20C_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_4C_A.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_4C_B.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_4C_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_4C_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_4C_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_25_75_4C_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_0_A.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_0_B.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_0_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_0_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_0_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_0_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_20C_A.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_20C_B.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_20C_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_20C_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_20C_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_20C_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_4C_A.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_4C_B.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_4C_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_4C_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_4C_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_50_50_4C_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_0_A.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_0_B.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_0_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_0_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_0_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_0_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_20C_A.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_20C_B.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_20C_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_20C_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_20C_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_20C_C3.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_4C_A.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_4C_B.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_4C_BLANK.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_4C_C1.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_4C_C2.mzML
FILES
plasma_RP_lipids_positive
IPA_ACN_75_25_4C_C3.mzML
FILES
plasma_RP_lipids_positive
MTBE_1min_A.mzML
FILES
plasma_RP_lipids_positive
MTBE_1min_B.mzML
FILES
plasma_RP_lipids_positive
MTBE_1min_BLANK.mzML
FILES
plasma_RP_lipids_positive
MTBE_1min_C1.mzML
FILES
plasma_RP_lipids_positive
MTBE_1min_C2.mzML
FILES
plasma_RP_lipids_positive
MTBE_1min_C3.mzML
FILES
plasma_RP_lipids_positive
MTBE_20min_A.mzML
FILES
plasma_RP_lipids_positive
MTBE_20min_B.mzML
FILES
plasma_RP_lipids_positive
MTBE_20min_BLANK.mzML
FILES
plasma_RP_lipids_positive
MTBE_20min_C1.mzML
FILES
plasma_RP_lipids_positive
MTBE_20min_C2.mzML
FILES
plasma_RP_lipids_positive
MTBE_20min_C3.mzML
FILES
plasma_RP_lipids_positive
QC1.mzML
FILES
plasma_RP_lipids_positive
QC10.mzML
FILES
plasma_RP_lipids_positive
QC11.mzML
FILES
plasma_RP_lipids_positive
QC12.mzML
FILES
plasma_RP_lipids_positive
QC13.mzML
FILES
plasma_RP_lipids_positive
QC14.mzML
FILES
plasma_RP_lipids_positive
QC15.mzML
FILES
plasma_RP_lipids_positive
QC16.mzML
FILES
plasma_RP_lipids_positive
QC17.mzML
FILES
plasma_RP_lipids_positive
QC18.mzML
FILES
plasma_RP_lipids_positive
QC19.mzML
FILES
plasma_RP_lipids_positive
QC2.mzML
FILES
plasma_RP_lipids_positive
QC20.mzML
FILES
plasma_RP_lipids_positive
QC21.mzML
FILES
plasma_RP_lipids_positive
QC22.mzML
FILES
plasma_RP_lipids_positive
QC3.mzML
FILES
plasma_RP_lipids_positive
QC4.mzML
FILES
plasma_RP_lipids_positive
QC5.mzML
FILES
plasma_RP_lipids_positive
QC6_MSMS_100_300.mzML
FILES
plasma_RP_lipids_positive
QC7_MSMS_300_600.mzML
FILES
plasma_RP_lipids_positive
QC8_MSMS_600_1500.mzML
FILES
plasma_RP_lipids_positive
QC9.mzML
FILES
urine_HILIC_negative
ACN_0_A.mzML
FILES
urine_HILIC_negative
ACN_0_B.mzML
FILES
urine_HILIC_negative
ACN_0_BLANK.mzML
FILES
urine_HILIC_negative
ACN_0_BLANK_01.mzML
FILES
urine_HILIC_negative
ACN_0_C1.mzML
FILES
urine_HILIC_negative
ACN_0_C2.mzML
FILES
urine_HILIC_negative
ACN_0_C3.mzML
FILES
urine_HILIC_negative
ACN_20C_A.mzML
FILES
urine_HILIC_negative
ACN_20C_B.mzML
FILES
urine_HILIC_negative
ACN_20C_BLANK.mzML
FILES
urine_HILIC_negative
ACN_20C_C1.mzML
FILES
urine_HILIC_negative
ACN_20C_C2.mzML
FILES
urine_HILIC_negative
ACN_20C_C3.mzML
FILES
urine_HILIC_negative
ACN_4C_A.mzML
FILES
urine_HILIC_negative
ACN_4C_B.mzML
FILES
urine_HILIC_negative
ACN_4C_BLANK.mzML
FILES
urine_HILIC_negative
ACN_4C_C1.mzML
FILES
urine_HILIC_negative
ACN_4C_C2.mzML
FILES
urine_HILIC_negative
ACN_4C_C3.mzML
FILES
urine_HILIC_negative
ACN_H20_0_A.mzML
FILES
urine_HILIC_negative
ACN_H20_0_B.mzML
FILES
urine_HILIC_negative
ACN_H20_0_C1.mzML
FILES
urine_HILIC_negative
ACN_H20_0_C2.mzML
FILES
urine_HILIC_negative
ACN_H20_0_C3.mzML
FILES
urine_HILIC_negative
ACN_H20_20C_A.mzML
FILES
urine_HILIC_negative
ACN_H20_20C_B.mzML
FILES
urine_HILIC_negative
ACN_H20_20C_C1.mzML
FILES
urine_HILIC_negative
ACN_H20_20C_C2.mzML
FILES
urine_HILIC_negative
ACN_H20_20C_C3.mzML
FILES
urine_HILIC_negative
ACN_H20_4C_A.mzML
FILES
urine_HILIC_negative
ACN_H20_4C_B.mzML
FILES
urine_HILIC_negative
ACN_H20_4C_C1.mzML
FILES
urine_HILIC_negative
ACN_H20_4C_C2.mzML
FILES
urine_HILIC_negative
ACN_H20_4C_C3.mzML
FILES
urine_HILIC_negative
ACN_H2O_0_BLANK.mzML
FILES
urine_HILIC_negative
ACN_H2O_20C_BLANK.mzML
FILES
urine_HILIC_negative
ACN_H2O_4C_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_0_A.mzML
FILES
urine_HILIC_negative
MEOH_0_B.mzML
FILES
urine_HILIC_negative
MEOH_0_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_0_C1.mzML
FILES
urine_HILIC_negative
MEOH_0_C2.mzML
FILES
urine_HILIC_negative
MEOH_0_C3.mzML
FILES
urine_HILIC_negative
MEOH_20C_A.mzML
FILES
urine_HILIC_negative
MEOH_20C_B.mzML
FILES
urine_HILIC_negative
MEOH_20C_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_20C_C1.mzML
FILES
urine_HILIC_negative
MEOH_20C_C2.mzML
FILES
urine_HILIC_negative
MEOH_20C_C3.mzML
FILES
urine_HILIC_negative
MEOH_4C_A.mzML
FILES
urine_HILIC_negative
MEOH_4C_B.mzML
FILES
urine_HILIC_negative
MEOH_4C_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_4C_C1.mzML
FILES
urine_HILIC_negative
MEOH_4C_C2.mzML
FILES
urine_HILIC_negative
MEOH_4C_C3.mzML
FILES
urine_HILIC_negative
MEOH_ACN_0_A.mzML
FILES
urine_HILIC_negative
MEOH_ACN_0_B.mzML
FILES
urine_HILIC_negative
MEOH_ACN_0_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_ACN_0_C1.mzML
FILES
urine_HILIC_negative
MEOH_ACN_0_C2.mzML
FILES
urine_HILIC_negative
MEOH_ACN_0_C3.mzML
FILES
urine_HILIC_negative
MEOH_ACN_20C_A.mzML
FILES
urine_HILIC_negative
MEOH_ACN_20C_B.mzML
FILES
urine_HILIC_negative
MEOH_ACN_20C_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_ACN_20C_C1.mzML
FILES
urine_HILIC_negative
MEOH_ACN_20C_C2.mzML
FILES
urine_HILIC_negative
MEOH_ACN_20C_C3.mzML
FILES
urine_HILIC_negative
MEOH_ACN_4C_A.mzML
FILES
urine_HILIC_negative
MEOH_ACN_4C_B.mzML
FILES
urine_HILIC_negative
MEOH_ACN_4C_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_ACN_4C_C1.mzML
FILES
urine_HILIC_negative
MEOH_ACN_4C_C2.mzML
FILES
urine_HILIC_negative
MEOH_ACN_4C_C3.mzML
FILES
urine_HILIC_negative
MEOH_H2O_0_A.mzML
FILES
urine_HILIC_negative
MEOH_H2O_0_B.mzML
FILES
urine_HILIC_negative
MEOH_H2O_0_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_H2O_0_C1.mzML
FILES
urine_HILIC_negative
MEOH_H2O_0_C2.mzML
FILES
urine_HILIC_negative
MEOH_H2O_0_C3.mzML
FILES
urine_HILIC_negative
MEOH_H2O_20C_A.mzML
FILES
urine_HILIC_negative
MEOH_H2O_20C_B.mzML
FILES
urine_HILIC_negative
MEOH_H2O_20C_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_H2O_20C_C1.mzML
FILES
urine_HILIC_negative
MEOH_H2O_20C_C2.mzML
FILES
urine_HILIC_negative
MEOH_H2O_20C_C3.mzML
FILES
urine_HILIC_negative
MEOH_H2O_4C_A.mzML
FILES
urine_HILIC_negative
MEOH_H2O_4C_B.mzML
FILES
urine_HILIC_negative
MEOH_H2O_4C_BLANK.mzML
FILES
urine_HILIC_negative
MEOH_H2O_4C_C1.mzML
FILES
urine_HILIC_negative
MEOH_H2O_4C_C2.mzML
FILES
urine_HILIC_negative
MEOH_H2O_4C_C3.mzML
FILES
urine_HILIC_negative
QC1.mzML
FILES
urine_HILIC_negative
QC10.mzML
FILES
urine_HILIC_negative
QC11.mzML
FILES
urine_HILIC_negative
QC12.mzML
FILES
urine_HILIC_negative
QC13.mzML
FILES
urine_HILIC_negative
QC14.mzML
FILES
urine_HILIC_negative
QC15.mzML
FILES
urine_HILIC_negative
QC16.mzML
FILES
urine_HILIC_negative
QC17.mzML
FILES
urine_HILIC_negative
QC18.mzML
FILES
urine_HILIC_negative
QC19.mzML
FILES
urine_HILIC_negative
QC2.mzML
FILES
urine_HILIC_negative
QC20.mzML
FILES
urine_HILIC_negative
QC21.mzML
FILES
urine_HILIC_negative
QC3.mzML
FILES
urine_HILIC_negative
QC4.mzML
FILES
urine_HILIC_negative
QC5.mzML
FILES
urine_HILIC_negative
QC6_MSMS_100_300.mzML
FILES
urine_HILIC_negative
QC7_MSMS_300_600.mzML
FILES
urine_HILIC_negative
QC8_MSMS_600_1500.mzML
FILES
urine_HILIC_negative
QC9.mzML
FILES
urine_HILIC_positive
ACN_0_A.mzML
FILES
urine_HILIC_positive
ACN_0_B.mzML
FILES
urine_HILIC_positive
ACN_0_BLANK.mzML
FILES
urine_HILIC_positive
ACN_0_BLANK_01.mzML
FILES
urine_HILIC_positive
ACN_0_C1.mzML
FILES
urine_HILIC_positive
ACN_0_C2.mzML
FILES
urine_HILIC_positive
ACN_0_C3.mzML
FILES
urine_HILIC_positive
ACN_20C_A.mzML
FILES
urine_HILIC_positive
ACN_20C_B.mzML
FILES
urine_HILIC_positive
ACN_20C_BLANK.mzML
FILES
urine_HILIC_positive
ACN_20C_C1.mzML
FILES
urine_HILIC_positive
ACN_20C_C2.mzML
FILES
urine_HILIC_positive
ACN_20C_C3.mzML
FILES
urine_HILIC_positive
ACN_4C_A.mzML
FILES
urine_HILIC_positive
ACN_4C_B.mzML
FILES
urine_HILIC_positive
ACN_4C_BLANK.mzML
FILES
urine_HILIC_positive
ACN_4C_C1.mzML
FILES
urine_HILIC_positive
ACN_4C_C2.mzML
FILES
urine_HILIC_positive
ACN_4C_C3.mzML
FILES
urine_HILIC_positive
ACN_H20_0_A.mzML
FILES
urine_HILIC_positive
ACN_H20_0_B.mzML
FILES
urine_HILIC_positive
ACN_H20_0_C1.mzML
FILES
urine_HILIC_positive
ACN_H20_0_C2.mzML
FILES
urine_HILIC_positive
ACN_H20_0_C3.mzML
FILES
urine_HILIC_positive
ACN_H20_20C_A.mzML
FILES
urine_HILIC_positive
ACN_H20_20C_B.mzML
FILES
urine_HILIC_positive
ACN_H20_20C_C1.mzML
FILES
urine_HILIC_positive
ACN_H20_20C_C2.mzML
FILES
urine_HILIC_positive
ACN_H20_20C_C3.mzML
FILES
urine_HILIC_positive
ACN_H20_4C_A.mzML
FILES
urine_HILIC_positive
ACN_H20_4C_B.mzML
FILES
urine_HILIC_positive
ACN_H20_4C_C1.mzML
FILES
urine_HILIC_positive
ACN_H20_4C_C2.mzML
FILES
urine_HILIC_positive
ACN_H20_4C_C3.mzML
FILES
urine_HILIC_positive
ACN_H2O_0_BLANK.mzML
FILES
urine_HILIC_positive
ACN_H2O_20C_BLANK.mzML
FILES
urine_HILIC_positive
ACN_H2O_4C_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_0_A.mzML
FILES
urine_HILIC_positive
MEOH_0_B.mzML
FILES
urine_HILIC_positive
MEOH_0_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_0_C1.mzML
FILES
urine_HILIC_positive
MEOH_0_C2.mzML
FILES
urine_HILIC_positive
MEOH_0_C3.mzML
FILES
urine_HILIC_positive
MEOH_20C_A.mzML
FILES
urine_HILIC_positive
MEOH_20C_B.mzML
FILES
urine_HILIC_positive
MEOH_20C_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_20C_C1.mzML
FILES
urine_HILIC_positive
MEOH_20C_C2.mzML
FILES
urine_HILIC_positive
MEOH_20C_C3.mzML
FILES
urine_HILIC_positive
MEOH_4C_A.mzML
FILES
urine_HILIC_positive
MEOH_4C_B.mzML
FILES
urine_HILIC_positive
MEOH_4C_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_4C_C1.mzML
FILES
urine_HILIC_positive
MEOH_4C_C2.mzML
FILES
urine_HILIC_positive
MEOH_4C_C3.mzML
FILES
urine_HILIC_positive
MEOH_ACN_0_A.mzML
FILES
urine_HILIC_positive
MEOH_ACN_0_B.mzML
FILES
urine_HILIC_positive
MEOH_ACN_0_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_ACN_0_C1.mzML
FILES
urine_HILIC_positive
MEOH_ACN_0_C2.mzML
FILES
urine_HILIC_positive
MEOH_ACN_0_C3.mzML
FILES
urine_HILIC_positive
MEOH_ACN_20C_A.mzML
FILES
urine_HILIC_positive
MEOH_ACN_20C_B.mzML
FILES
urine_HILIC_positive
MEOH_ACN_20C_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_ACN_20C_C1.mzML
FILES
urine_HILIC_positive
MEOH_ACN_20C_C2.mzML
FILES
urine_HILIC_positive
MEOH_ACN_20C_C3.mzML
FILES
urine_HILIC_positive
MEOH_ACN_4C_A.mzML
FILES
urine_HILIC_positive
MEOH_ACN_4C_B.mzML
FILES
urine_HILIC_positive
MEOH_ACN_4C_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_ACN_4C_C1.mzML
FILES
urine_HILIC_positive
MEOH_ACN_4C_C2.mzML
FILES
urine_HILIC_positive
MEOH_ACN_4C_C3.mzML
FILES
urine_HILIC_positive
MEOH_H2O_0_A.mzML
FILES
urine_HILIC_positive
MEOH_H2O_0_B.mzML
FILES
urine_HILIC_positive
MEOH_H2O_0_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_H2O_0_C1.mzML
FILES
urine_HILIC_positive
MEOH_H2O_0_C2.mzML
FILES
urine_HILIC_positive
MEOH_H2O_0_C3.mzML
FILES
urine_HILIC_positive
MEOH_H2O_20C_A.mzML
FILES
urine_HILIC_positive
MEOH_H2O_20C_B.mzML
FILES
urine_HILIC_positive
MEOH_H2O_20C_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_H2O_20C_C1.mzML
FILES
urine_HILIC_positive
MEOH_H2O_20C_C2.mzML
FILES
urine_HILIC_positive
MEOH_H2O_20C_C3.mzML
FILES
urine_HILIC_positive
MEOH_H2O_4C_A.mzML
FILES
urine_HILIC_positive
MEOH_H2O_4C_B.mzML
FILES
urine_HILIC_positive
MEOH_H2O_4C_BLANK.mzML
FILES
urine_HILIC_positive
MEOH_H2O_4C_C1.mzML
FILES
urine_HILIC_positive
MEOH_H2O_4C_C2.mzML
FILES
urine_HILIC_positive
MEOH_H2O_4C_C3.mzML
FILES
urine_HILIC_positive
QC1.mzML
FILES
urine_HILIC_positive
QC10.mzML
FILES
urine_HILIC_positive
QC11.mzML
FILES
urine_HILIC_positive
QC12.mzML
FILES
urine_HILIC_positive
QC13.mzML
FILES
urine_HILIC_positive
QC14.mzML
FILES
urine_HILIC_positive
QC15.mzML
FILES
urine_HILIC_positive
QC16.mzML
FILES
urine_HILIC_positive
QC17.mzML
FILES
urine_HILIC_positive
QC18.mzML
FILES
urine_HILIC_positive
QC19.mzML
FILES
urine_HILIC_positive
QC2.mzML
FILES
urine_HILIC_positive
QC20.mzML
FILES
urine_HILIC_positive
QC21.mzML
FILES
urine_HILIC_positive
QC3.mzML
FILES
urine_HILIC_positive
QC4.mzML
FILES
urine_HILIC_positive
QC5.mzML
FILES
urine_HILIC_positive
QC6_MSMS_100_300.mzML
FILES
urine_HILIC_positive
QC7_MSMS_300_600.mzML
FILES
urine_HILIC_positive
QC8_MSMS_600_1500.mzML
FILES
urine_HILIC_positive
QC9.mzML
FILES
urine_RP_aqueous_negative
ACN_0_A.mzML
FILES
urine_RP_aqueous_negative
ACN_0_B.mzML
FILES
urine_RP_aqueous_negative
ACN_0_BLANK.mzML
FILES
urine_RP_aqueous_negative
ACN_0_BLANK_01.mzML
FILES
urine_RP_aqueous_negative
ACN_0_C1.mzML
FILES
urine_RP_aqueous_negative
ACN_0_C2.mzML
FILES
urine_RP_aqueous_negative
ACN_0_C3.mzML
FILES
urine_RP_aqueous_negative
ACN_20C_A.mzML
FILES
urine_RP_aqueous_negative
ACN_20C_B.mzML
FILES
urine_RP_aqueous_negative
ACN_20C_BLANK.mzML
FILES
urine_RP_aqueous_negative
ACN_20C_C1.mzML
FILES
urine_RP_aqueous_negative
ACN_20C_C2.mzML
FILES
urine_RP_aqueous_negative
ACN_20C_C3.mzML
FILES
urine_RP_aqueous_negative
ACN_4C_A.mzML
FILES
urine_RP_aqueous_negative
ACN_4C_B.mzML
FILES
urine_RP_aqueous_negative
ACN_4C_BLANK.mzML
FILES
urine_RP_aqueous_negative
ACN_4C_C1.mzML
FILES
urine_RP_aqueous_negative
ACN_4C_C2.mzML
FILES
urine_RP_aqueous_negative
ACN_4C_C3.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_0_A.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_0_B.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_0_C1.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_0_C2.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_0_C3.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_20C_A.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_20C_B.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_20C_C1.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_20C_C2.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_20C_C3.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_4C_A.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_4C_B.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_4C_C1.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_4C_C2.mzML
FILES
urine_RP_aqueous_negative
ACN_H20_4C_C3.mzML
FILES
urine_RP_aqueous_negative
ACN_H2O_0_BLANK.mzML
FILES
urine_RP_aqueous_negative
ACN_H2O_20C_BLANK.mzML
FILES
urine_RP_aqueous_negative
ACN_H2O_4C_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_0_A.mzML
FILES
urine_RP_aqueous_negative
MEOH_0_B.mzML
FILES
urine_RP_aqueous_negative
MEOH_0_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_0_C1.mzML
FILES
urine_RP_aqueous_negative
MEOH_0_C2.mzML
FILES
urine_RP_aqueous_negative
MEOH_0_C3.mzML
FILES
urine_RP_aqueous_negative
MEOH_20C_A.mzML
FILES
urine_RP_aqueous_negative
MEOH_20C_B.mzML
FILES
urine_RP_aqueous_negative
MEOH_20C_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_20C_C1.mzML
FILES
urine_RP_aqueous_negative
MEOH_20C_C2.mzML
FILES
urine_RP_aqueous_negative
MEOH_20C_C3.mzML
FILES
urine_RP_aqueous_negative
MEOH_4C_A.mzML
FILES
urine_RP_aqueous_negative
MEOH_4C_B.mzML
FILES
urine_RP_aqueous_negative
MEOH_4C_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_4C_C1.mzML
FILES
urine_RP_aqueous_negative
MEOH_4C_C2.mzML
FILES
urine_RP_aqueous_negative
MEOH_4C_C3.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_0_A.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_0_B.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_0_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_0_C1.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_0_C2.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_0_C3.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_20C_A.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_20C_B.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_20C_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_20C_C1.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_20C_C2.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_20C_C3.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_4C_A.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_4C_B.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_4C_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_4C_C1.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_4C_C2.mzML
FILES
urine_RP_aqueous_negative
MEOH_ACN_4C_C3.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_0_A.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_0_B.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_0_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_0_C1.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_0_C2.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_0_C3.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_20C_A.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_20C_B.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_20C_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_20C_C1.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_20C_C2.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_20C_C3.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_4C_A.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_4C_B.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_4C_BLANK.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_4C_C1.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_4C_C2.mzML
FILES
urine_RP_aqueous_negative
MEOH_H2O_4C_C3.mzML
FILES
urine_RP_aqueous_negative
QC1.mzML
FILES
urine_RP_aqueous_negative
QC10.mzML
FILES
urine_RP_aqueous_negative
QC11.mzML
FILES
urine_RP_aqueous_negative
QC12.mzML
FILES
urine_RP_aqueous_negative
QC13.mzML
FILES
urine_RP_aqueous_negative
QC14.mzML
FILES
urine_RP_aqueous_negative
QC15.mzML
FILES
urine_RP_aqueous_negative
QC16.mzML
FILES
urine_RP_aqueous_negative
QC17.mzML
FILES
urine_RP_aqueous_negative
QC18.mzML
FILES
urine_RP_aqueous_negative
QC19.mzML
FILES
urine_RP_aqueous_negative
QC2.mzML
FILES
urine_RP_aqueous_negative
QC20.mzML
FILES
urine_RP_aqueous_negative
QC21.mzML
FILES
urine_RP_aqueous_negative
QC3.mzML
FILES
urine_RP_aqueous_negative
QC4.mzML
FILES
urine_RP_aqueous_negative
QC5.mzML
FILES
urine_RP_aqueous_negative
QC6_MSMS_100_300.mzML
FILES
urine_RP_aqueous_negative
QC7_MSMS_300_600.mzML
FILES
urine_RP_aqueous_negative
QC8_MSMS_600_1500.mzML
FILES
urine_RP_aqueous_negative
QC9.mzML
FILES
urine_RP_aqueous_positive
ACN_0_A.mzML
FILES
urine_RP_aqueous_positive
ACN_0_B.mzML
FILES
urine_RP_aqueous_positive
ACN_0_BLANK.mzML
FILES
urine_RP_aqueous_positive
ACN_0_BLANK_01.mzML
FILES
urine_RP_aqueous_positive
ACN_0_C1.mzML
FILES
urine_RP_aqueous_positive
ACN_0_C2.mzML
FILES
urine_RP_aqueous_positive
ACN_0_C3.mzML
FILES
urine_RP_aqueous_positive
ACN_20C_A.mzML
FILES
urine_RP_aqueous_positive
ACN_20C_B.mzML
FILES
urine_RP_aqueous_positive
ACN_20C_BLANK.mzML
FILES
urine_RP_aqueous_positive
ACN_20C_C1.mzML
FILES
urine_RP_aqueous_positive
ACN_20C_C2.mzML
FILES
urine_RP_aqueous_positive
ACN_20C_C3.mzML
FILES
urine_RP_aqueous_positive
ACN_4C_A.mzML
FILES
urine_RP_aqueous_positive
ACN_4C_B.mzML
FILES
urine_RP_aqueous_positive
ACN_4C_BLANK.mzML
FILES
urine_RP_aqueous_positive
ACN_4C_C1.mzML
FILES
urine_RP_aqueous_positive
ACN_4C_C2.mzML
FILES
urine_RP_aqueous_positive
ACN_4C_C3.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_0_A.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_0_B.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_0_C1.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_0_C2.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_0_C3.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_20C_A.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_20C_B.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_20C_C1.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_20C_C2.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_20C_C3.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_4C_A.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_4C_B.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_4C_C1.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_4C_C2.mzML
FILES
urine_RP_aqueous_positive
ACN_H20_4C_C3.mzML
FILES
urine_RP_aqueous_positive
ACN_H2O_0_BLANK.mzML
FILES
urine_RP_aqueous_positive
ACN_H2O_20C_BLANK.mzML
FILES
urine_RP_aqueous_positive
ACN_H2O_4C_BLANK.mzML
FILES
urine_RP_aqueous_positive
MEOH_0_A.mzML
FILES
urine_RP_aqueous_positive
MEOH_0_B.mzML
FILES
urine_RP_aqueous_positive
MEOH_0_BLANK.mzML
FILES
urine_RP_aqueous_positive
MEOH_0_C1.mzML
FILES
urine_RP_aqueous_positive
MEOH_0_C2.mzML
FILES
urine_RP_aqueous_positive
MEOH_0_C3.mzML
FILES
urine_RP_aqueous_positive
MEOH_20C_A.mzML
FILES
urine_RP_aqueous_positive
MEOH_20C_B.mzML
FILES
urine_RP_aqueous_positive
MEOH_20C_BLANK.mzML
FILES
urine_RP_aqueous_positive
MEOH_20C_C1.mzML
FILES
urine_RP_aqueous_positive
MEOH_20C_C2.mzML
FILES
urine_RP_aqueous_positive
MEOH_20C_C3.mzML
FILES
urine_RP_aqueous_positive
MEOH_4C_A.mzML
FILES
urine_RP_aqueous_positive
MEOH_4C_B.mzML
FILES
urine_RP_aqueous_positive
MEOH_4C_BLANK.mzML
FILES
urine_RP_aqueous_positive
MEOH_4C_C1.mzML
FILES
urine_RP_aqueous_positive
MEOH_4C_C2.mzML
FILES
urine_RP_aqueous_positive
MEOH_4C_C3.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_0_A.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_0_B.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_0_BLANK.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_0_C1.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_0_C2.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_0_C3.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_20C_A.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_20C_B.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_20C_BLANK.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_20C_C1.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_20C_C2.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_20C_C3.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_4C_A.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_4C_B.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_4C_BLANK.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_4C_C1.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_4C_C2.mzML
FILES
urine_RP_aqueous_positive
MEOH_ACN_4C_C3.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_0_A.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_0_B.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_0_BLANK.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_0_C1.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_0_C2.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_0_C3.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_20C_A.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_20C_B.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_20C_BLANK.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_20C_C1.mzML
FILES
urine_RP_aqueous_positive
MEOH_H2O_20C_C2.mzML
FILES
urine_RP_aqueous_positive
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IGNORED:  Is Organ/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 10%|▉         | 166/1674 [21:09<7:41:59, 18.38s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 10%|▉         | 167/1674 [21:17<6:21:04, 15.17s/it]
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Number of rows removed due to not enough metadata: 0
Returning 969 rows!
Added 969 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1474
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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qiita_sample_name: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 84 rows!
Added 84 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS148
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Temperature
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Samples_Preservative
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Injection order
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Samples_Experiment
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Sample type_1
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Polarity
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 280 rows!
Added 280 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1481
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ChromatographyAndPhase:
   (Phenyl-Hexyl): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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FILES
ZB8_RP_neg.mzXML
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ZB8_RP_pos.mzXML
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ZB9_NP_neg.mzXML
FILES
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ZB9_RP_pos.mzXML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 356 rows!
Added 356 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1485
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 5975C MSD: missing value
  Waters SYNAPT HDMS System: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
GC
BLK-acetone-1.D
FILES
GC
BLK-acetone-2.D
FILES
GC
BLK-acetone-3.D
FILES
GC
BLK-acetone-4.D
FILES
GC
GCMC#2_001_IS.D
FILES
GC
RI.D
FILES
GC
STD0.D
FILES
GC
STD1.D
FILES
GC
STD2.D
FILES
GC
STD3.D
FILES
GC
STD4.D
FILES
GC
STD5.D
FILES
GC
STD6.D
FILES
GC
STD7.D
FILES
GC
Sample_1.D
FILES
GC
Sample_10.D
FILES
GC
Sample_11.D
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GC
Sample_12.D
FILES
GC
Sample_13.D
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GC
Sample_14.D
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GC
Sample_15.D
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Sample_16.D
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GC
Sample_17.D
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Sample_18.D
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GC
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GC
Sample_2.D
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GC
Sample_20.D
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GC
Sample_21.D
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GC
Sample_3.D
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GC
Sample_4.D
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GC
Sample_5.D
FILES
GC
Sample_6.D
FILES
GC
Sample_7.D
FILES
GC
Sample_8.D
FILES
GC
Sample_9.D
FILES
LC
Dih_pos.raw
FILES
LC
Kav_neg_15June2017.raw
FILES
LC
S10_neg_15June2017.raw
FILES
LC
S10_pos_15June2017.raw
FILES
LC
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LC
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FILES
LC
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LC
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FILES
LC
S21_pos_15June2017.raw
FILES
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FILES
LC
S2_pos_15June2017.raw
FILES
LC/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 10%|█         | 170/1674 [21:46<4:50:58, 11.61s/it]
 10%|█         | 171/1674 [21:48<3:39:02,  8.74s/it]
 10%|█         | 172/1674 [21:51<2:52:27,  6.89s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 10%|█         | 173/1674 [21:55<2:34:35,  6.18s/it]
S3_neg_15June2017.raw
FILES
LC
S3_pos_15June2017.raw
FILES
LC
S4_neg_15June2017.raw
FILES
LC
S4_pos_15June2017.raw
FILES
LC
S5_neg_15June2017.raw
FILES
LC
S5_pos_15June2017.raw
FILES
LC
S6_neg_15June2017.raw
FILES
LC
S6_pos_15June2017.raw
FILES
LC
S7_neg_15June2017.raw
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LC
S7_pos_15June2017.raw
FILES
LC
S8_neg_15June2017.raw
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LC
S8_pos_15June2017.raw
FILES
LC
S9_neg_15June2017.raw
FILES
LC
S9_pos_15June2017.raw
FILES
LC
blank01_15June2017.raw
FILES
LC
blank03_15June2017.raw
FILES
LC
blank04_15June2017.raw
FILES
LC
blank05_15June2017.raw
FILES
LC
blank06_15June2017.raw
FILES
LC
blank07_15June2017.raw
FILES
LC
blank08_15June2017.raw
FILES
LC
blank09_15June2017.raw
FILES
LC
blank10_15June2017.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Label
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IGNORED:  Assay_Column model
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 12
Returning 76 rows!
Added 76 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1488
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS149
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1490
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
p1719_4100_pos_01.raw
FILES
p1719_4100_pos_02.raw
FILES
p1719_4100_pos_03.raw
FILES
p1719_4100_pos_04.raw
FILES
p1719_4100_pos_05.raw
FILES
p1719_4100_pos_06.raw
FILES
p1719_4100_pos_07.raw
FILES
p1719_4100_pos_08.raw
FILES
p1719_4100_pos_09.raw
FILES
p1719_4100_pos_10.raw
FILES
p1719_4100_pos_11.raw
FILES
p1719_4100_pos_12.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Carnitine
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_tissue specimen
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_surgery: tendon release
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_specimen mass
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_route of administration
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_specimen preservation temperature
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
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Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1503
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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FILES
noLR10-pos-2.mzXML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 10%|█         | 174/1674 [22:00<2:25:23,  5.82s/it]
noLR10-pos-3.mzXML
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Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1507
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Samples_3BP Treatment/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 10%|█         | 175/1674 [22:07<2:34:23,  6.18s/it]
IGNORED:  Samples_Term Source REF.5
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Number of rows removed due to not enough metadata: 0
Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1509
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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  Agilent 5977B MSD: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
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IGNORED:  Samples_Organism
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IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Thermal Desorption unit
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IGNORED:  Samples_Analytical replicate
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Maturation stage
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_Assay
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Samples_Penicillium roqueforti population
IGNORED:  Samples_Dilution Factor
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Assay replicate
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 48
Returning 494 rows!
Added 494 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS151
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1518
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1531
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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QEx03_NM_000788.mzML
FILES
QEx03_NM_000789.mzML
FILES
QEx03_NM_000790.mzML
FILES
QEx03_NM_000791.mzML
FILES
QEx03_NM_000792.mzML
FILES
QEx03_NM_000793.mzML
FILES
QEx03_NM_000794.mzML
FILES
QEx03_NM_000795.mzML
FILES
QEx03_NM_000796.mzML
FILES
QEx03_NM_000797.mzML
FILES
QEx03_NM_000798.mzML
FILES
QEx03_NM_000799.mzML
FILES
QEx03_NM_000800.mzML
FILES
QExHF03_NM_0002454.mzML
FILES
QExHF03_NM_0002455.mzML
FILES
QExHF03_NM_0002456.mzML
FILES
QExHF03_NM_0002457.mzML
FILES
QExHF03_NM_0002458.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 11%|█         | 179/1674 [22:35<2:22:22,  5.71s/it]
 11%|█         | 180/1674 [22:37<1:51:32,  4.48s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 11%|█         | 181/1674 [22:42<1:57:34,  4.73s/it]
 11%|█         | 182/1674 [22:46<1:53:16,  4.56s/it]
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FILES
QExHF03_NM_0002459.mzML
FILES
QExHF03_NM_0002460.mzML
FILES
QExHF03_NM_0002461.mzML
FILES
QExHF03_NM_0002464.mzML
FILES
QExHF03_NM_0002466.mzML
FILES
QExHF03_NM_0002467.mzML
FILES
QExHF03_NM_0002470.mzML
FILES
QExHF03_NM_0002472.mzML
FILES
QExHF03_NM_0002475.mzML
FILES
QExHF03_NM_0002476.mzML
FILES
QExHF03_NM_0002477.mzML
FILES
QExHF03_NM_0002478.mzML
FILES
QExHF03_NM_0002479.mzML
FILES
QExHF03_NM_0002481.mzML
FILES
QExHF03_NM_0002483.mzML
FILES
QExHF03_NM_0002484.mzML
FILES
QExHF03_NM_0002486.mzML
FILES
QExHF03_NM_0002487.mzML
FILES
QExHF03_NM_0002488.mzML
FILES
QExHF03_NM_0002489.mzML
FILES
QExHF03_NM_0002492.mzML
FILES
QExHF03_NM_0002493_190719105800.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_DI Instrument
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Environment
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 43 rows!
Added 43 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1537
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1540
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
10Neg.mzML
FILES
10Pos.mzML
FILES
11Neg.mzML
FILES
11Pos.mzML
FILES
12Neg.mzML
FILES
12Pos.mzML
FILES
13Neg.mzML
FILES
13Pos.mzML
FILES
14Neg.mzML
FILES
14Pos.mzML
FILES
15Neg.mzML
FILES
15Pos.mzML
FILES
16Neg.mzML
FILES
16Pos.mzML
FILES
17Neg.mzML
FILES
17Pos.mzML
FILES
18Neg.mzML
FILES
18Pos.mzML
FILES
19Neg.mzML
FILES
19Pos.mzML
FILES
1Neg.mzML
FILES
1Pos.mzML
FILES
2Neg.mzML
FILES
2Pos.mzML
FILES
3Neg.mzML
FILES
3Pos.mzML
FILES
4Neg.mzML
FILES
4Pos.mzML
FILES
5Neg.mzML
FILES
5Pos.mzML
FILES
6Neg.mzML
FILES
6Pos.mzML
FILES
7Neg.mzML
FILES
7Pos.mzML
FILES
8Neg.mzML
FILES
8Pos.mzML
FILES
9Neg.mzML
FILES
9Pos.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Frail Scale
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1541
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1544
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1550
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Blank.raw
FILES
DL-Avr_1.raw
FILES
DL-Avr_2.raw
FILES
DL-Avr_3.raw
FILES
DL-Avr_4.raw
FILES
DL-Avr_5.raw
FILES
DL-Avr_6.raw
FILES
DL-CK_1.raw
FILES
DL-CK_2.raw
FILES
DL-CK_3.raw
FILES
DL-CK_4.raw
FILES
DL-CK_5.raw
FILES
DL-CK_6.raw
FILES
DL-Vir_1.raw
FILES
DL-Vir_2.raw
FILES
DL-Vir_3.raw
FILES
DL-Vir_4.raw
FILES
DL-Vir_5.raw
FILES
DL-Vir_6.raw
FILES
LL-Avr_1.raw
FILES
LL-Avr_2.raw
FILES
LL-Avr_3.raw
FILES
LL-Avr_4.raw
FILES
LL-Avr_5.raw
FILES
LL-Avr_6.raw
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LL-CK_1.raw
FILES
LL-CK_2.raw
FILES
LL-CK_3.raw
FILES
LL-CK_4.raw
FILES
LL-CK_5.raw
FILES
LL-CK_6.raw
FILES
LL-Vir_1.raw
FILES
LL-Vir_2.raw
FILES
LL-Vir_3.raw
FILES
LL-Vir_4.raw
FILES
LL-Vir_5.raw
FILES
LL-Vir_6.raw
FILES
QC_1.raw
FILES
QC_2.raw
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QC_3.raw
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QC_4.raw
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QC_5.raw
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QC_6.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 11%|█         | 184/1674 [22:53<1:47:38,  4.33s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 11%|█         | 185/1674 [23:00<2:04:55,  5.03s/it]
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Leaf location
IGNORED:  Assay_Term Accession Number.6
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 43 rows!
Added 43 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1558
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
  Thermo Scientific LTQ Orbitrap XL ETD: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
1.cdf
FILES
100.cdf
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103.cdf
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104.cdf
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105.cdf
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111.cdf
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133.cdf
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FILES
341.cdf
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344.cdf
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35.cdf
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350.cdf
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353.cdf
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40.cdf
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49.cdf
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53.cdf
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54.cdf
FILES
55.cdf
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56.cdf
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58.cdf
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61.cdf
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Birth year
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Diagnosis
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Assay_DI Instrument
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 162 rows!
Added 162 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1561
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 7200 Q-TOF: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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Nominal/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Term Source REF.4
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IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 3
Returning 113 rows!
Added 113 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1497
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1565
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus III: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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FILES
18059ix_9.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 11%|█         | 188/1674 [23:17<2:09:26,  5.23s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
18065if_8.cdf
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Protocol REF
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IGNORED:  keep
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IGNORED:  extension
IGNORED:  Samples_Timepoint
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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
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IGNORED:  Assay_Label
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
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IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 108 rows!
Added 108 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1569
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Blank_1.mzXML
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1570
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1584
Request successful!
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Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 11%|█▏        | 191/1674 [23:30<1:59:19,  4.83s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 207 rows!
Added 207 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1612
Request successful!
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Number of rows removed due to not enough metadata: 2
Returning 58 rows!
Added 58 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1677
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS168
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1692
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific Q Exactive: missing value
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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metab_lc_hrms
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Number of rows removed due to not enough metadata: 30
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1693
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1698
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS158
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 12%|█▏        | 198/1674 [24:05<2:31:50,  6.17s/it]
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Samples_Group
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Samples_Treatment
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  Samples_Time Point
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Animal ID
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 360 rows!
Added 360 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1707
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Focus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES
HILIC_positive
L25_MTBE_E.mzML
FILES
HILIC_positive
L25_MTBE_E2.mzML
FILES
HILIC_positive
L25_MTBE_E3.mzML
FILES
HILIC_positive
L25_MTBE_E4.mzML
FILES
HILIC_positive
L25_MTBE_E5.mzML
FILES
HILIC_positive
L6_MH_A.mzML
FILES
HILIC_positive
L7_MH_B.mzML
FILES
HILIC_positive
L8_MH_C.mzML
FILES
HILIC_positive
L9_MH_D.mzML
FILES
HILIC_positive
QC1.mzML
FILES
HILIC_positive
QC10.mzML
FILES
HILIC_positive
QC11.mzML
FILES
HILIC_positive
QC12.mzML
FILES
HILIC_positive
QC13.mzML
FILES
HILIC_positive
QC14.mzML
FILES
HILIC_positive
QC15.mzML
FILES
HILIC_positive
QC16.mzML
FILES
HILIC_positive
QC17.mzML
FILES
HILIC_positive
QC18.mzML
FILES
HILIC_positive
QC19.mzML
FILES
HILIC_positive
QC2.mzML
FILES
HILIC_positive
QC20.mzML
FILES
HILIC_positive
QC21.mzML
FILES
HILIC_positive
QC22.mzML
FILES
HILIC_positive
QC23.mzML
FILES
HILIC_positive
QC24.mzML
FILES
HILIC_positive
QC25_MSMS_70_200.mzML
FILES
HILIC_positive
QC26_MSMS_200_400.mzML
FILES
HILIC_positive
QC27_MSMS_400_1000.mzML
FILES
HILIC_positive
QC3.mzML
FILES
HILIC_positive
QC4.mzML
FILES
HILIC_positive
QC5.mzML
FILES
HILIC_positive
QC6.mzML
FILES
HILIC_positive
QC7.mzML
FILES
HILIC_positive
QC8.mzML
FILES
HILIC_positive
QC9.mzML
FILES
RP_lipids_negative
Blank_BD.mzML
FILES
RP_lipids_negative
Blank_DCM.mzML
FILES
RP_lipids_negative
Blank_ML.mzML
FILES
RP_lipids_negative
Blank_ML_start.mzML
FILES
RP_lipids_negative
Blank_MTBE.mzML
FILES
RP_lipids_negative
H11_BD_A.mzML
FILES
RP_lipids_negative
H12_BD_B.mzML
FILES
RP_lipids_negative
H13_BD_C.mzML
FILES
RP_lipids_negative
H14_BD_D.mzML
FILES
RP_lipids_negative
H15_BD_E.mzML
FILES
RP_lipids_negative
H15_BD_E2.mzML
FILES
RP_lipids_negative
H15_BD_E3.mzML
FILES
RP_lipids_negative
H15_BD_E4.mzML
FILES
RP_lipids_negative
H15_BD_E5.mzML
FILES
RP_lipids_negative
H16_DCM_A.mzML
FILES
RP_lipids_negative
H17_DCM_B.mzML
FILES
RP_lipids_negative
H18_DCM_C.mzML
FILES
RP_lipids_negative
H19_DCM_D.mzML
FILES
RP_lipids_negative
H1_ML_A.mzML
FILES
RP_lipids_negative
H20_DCM_E.mzML
FILES
RP_lipids_negative
H20_DCM_E2.mzML
FILES
RP_lipids_negative
H20_DCM_E3.mzML
FILES
RP_lipids_negative
H20_DCM_E4.mzML
FILES
RP_lipids_negative
H20_DCM_E5.mzML
FILES
RP_lipids_negative
H21_MTBE_A.mzML
FILES
RP_lipids_negative
H22_MTBE_B.mzML
FILES
RP_lipids_negative
H23_MTBE_C.mzML
FILES
RP_lipids_negative
H24_MTBE_E.mzML
FILES
RP_lipids_negative
H24_MTBE_E2.mzML
FILES
RP_lipids_negative
H24_MTBE_E3.mzML
FILES
RP_lipids_negative
H24_MTBE_E4.mzML
FILES
RP_lipids_negative
H24_MTBE_E5.mzML
FILES
RP_lipids_negative
H25_MTBE_D.mzML
FILES
RP_lipids_negative
H2_ML_B.mzML
FILES
RP_lipids_negative
H3_ML_C.mzML
FILES
RP_lipids_negative
H4_ML_D.mzML
FILES
RP_lipids_negative
H5_ML_E.mzML
FILES
RP_lipids_negative
H5_ML_E2.mzML
FILES
RP_lipids_negative
H5_ML_E3.mzML
FILES
RP_lipids_negative
H5_ML_E4.mzML
FILES
RP_lipids_negative
H5_ML_E5.mzML
FILES
RP_lipids_negative
K11_BD_A.mzML
FILES
RP_lipids_negative
K12_BD_B.mzML
FILES
RP_lipids_negative
K13_BD_C.mzML
FILES
RP_lipids_negative
K14_BD_D.mzML
FILES
RP_lipids_negative
K15_BD_E.mzML
FILES
RP_lipids_negative
K15_BD_E2.mzML
FILES
RP_lipids_negative
K15_BD_E3.mzML
FILES
RP_lipids_negative
K15_BD_E4.mzML
FILES
RP_lipids_negative
K15_BD_E5.mzML
FILES
RP_lipids_negative
K16_DCM_A.mzML
FILES
RP_lipids_negative
K17_DCM_B.mzML
FILES
RP_lipids_negative
K18_DCM_C.mzML
FILES
RP_lipids_negative
K19_DCM_D.mzML
FILES
RP_lipids_negative
K1_ML_A.mzML
FILES
RP_lipids_negative
K20_DCM_E.mzML
FILES
RP_lipids_negative
K20_DCM_E2.mzML
FILES
RP_lipids_negative
K20_DCM_E3.mzML
FILES
RP_lipids_negative
K20_DCM_E4.mzML
FILES
RP_lipids_negative
K20_DCM_E5.mzML
FILES
RP_lipids_negative
K21_MTBE_A.mzML
FILES
RP_lipids_negative
K22_MTBE_B.mzML
FILES
RP_lipids_negative
K23_MTBE_C.mzML
FILES
RP_lipids_negative
K24_MTBE_D.mzML
FILES
RP_lipids_negative
K25_MTBE_E.mzML
FILES
RP_lipids_negative
K25_MTBE_E2.mzML
FILES
RP_lipids_negative
K25_MTBE_E3.mzML
FILES
RP_lipids_negative
K25_MTBE_E4.mzML
FILES
RP_lipids_negative
K25_MTBE_E5.mzML
FILES
RP_lipids_negative
K2_ML_B.mzML
FILES
RP_lipids_negative
K3_ML_C.mzML
FILES
RP_lipids_negative
K4_ML_D.mzML
FILES
RP_lipids_negative
K5_ML_E.mzML
FILES
RP_lipids_negative
K5_ML_E2.mzML
FILES
RP_lipids_negative
K5_ML_E3.mzML
FILES
RP_lipids_negative
K5_ML_E4.mzML
FILES
RP_lipids_negative
K5_ML_E5.mzML
FILES
RP_lipids_negative
L11_BD_A.mzML
FILES
RP_lipids_negative
L12_BD_B.mzML
FILES
RP_lipids_negative
L13_BD_C.mzML
FILES
RP_lipids_negative
L14_BD_D.mzML
FILES
RP_lipids_negative
L15_BD_E.mzML
FILES
RP_lipids_negative
L15_BD_E2.mzML
FILES
RP_lipids_negative
L15_BD_E3.mzML
FILES
RP_lipids_negative
L15_BD_E4.mzML
FILES
RP_lipids_negative
L15_BD_E5.mzML
FILES
RP_lipids_negative
L16_DCM_A.mzML
FILES
RP_lipids_negative
L17_DCM_B.mzML
FILES
RP_lipids_negative
L18_DCM_C.mzML
FILES
RP_lipids_negative
L19_DCM_D.mzML
FILES
RP_lipids_negative
L1_ML_A.mzML
FILES
RP_lipids_negative
L20_DCM_E.mzML
FILES
RP_lipids_negative
L20_DCM_E2.mzML
FILES
RP_lipids_negative
L20_DCM_E3.mzML
FILES
RP_lipids_negative
L20_DCM_E4.mzML
FILES
RP_lipids_negative
L20_DCM_E5.mzML
FILES
RP_lipids_negative
L21_MTBE_A.mzML
FILES
RP_lipids_negative
L22_MTBE_B.mzML
FILES
RP_lipids_negative
L23_MTBE_C.mzML
FILES
RP_lipids_negative
L24_MTBE_D.mzML
FILES
RP_lipids_negative
L25_MTBE_E.mzML
FILES
RP_lipids_negative
L25_MTBE_E2.mzML
FILES
RP_lipids_negative
L25_MTBE_E3.mzML
FILES
RP_lipids_negative
L25_MTBE_E4.mzML
FILES
RP_lipids_negative
L25_MTBE_E5.mzML
FILES
RP_lipids_negative
L2_ML_B.mzML
FILES
RP_lipids_negative
L3_ML_C.mzML
FILES
RP_lipids_negative
L4_ML_D.mzML
FILES
RP_lipids_negative
L5_ML_E.mzML
FILES
RP_lipids_negative
L5_ML_E2.mzML
FILES
RP_lipids_negative
L5_ML_E3.mzML
FILES
RP_lipids_negative
L5_ML_E4.mzML
FILES
RP_lipids_negative
L5_ML_E5.mzML
FILES
RP_lipids_negative
QC1.mzML
FILES
RP_lipids_negative
QC10.mzML
FILES
RP_lipids_negative
QC11.mzML
FILES
RP_lipids_negative
QC12.mzML
FILES
RP_lipids_negative
QC13.mzML
FILES
RP_lipids_negative
QC14.mzML
FILES
RP_lipids_negative
QC15.mzML
FILES
RP_lipids_negative
QC16.mzML
FILES
RP_lipids_negative
QC17.mzML
FILES
RP_lipids_negative
QC18.mzML
FILES
RP_lipids_negative
QC19.mzML
FILES
RP_lipids_negative
QC2.mzML
FILES
RP_lipids_negative
QC20.mzML
FILES
RP_lipids_negative
QC21.mzML
FILES
RP_lipids_negative
QC22.mzML
FILES
RP_lipids_negative
QC23.mzML
FILES
RP_lipids_negative
QC24_MSMS_150_650.mzML
FILES
RP_lipids_negative
QC25_MSMS_650_750.mzML
FILES
RP_lipids_negative
QC26_MSMS_750_850.mzML
FILES
RP_lipids_negative
QC27_MSMS_850_950.mzML
FILES
RP_lipids_negative
QC28_MSMS_950_2000.mzML
FILES
RP_lipids_negative
QC3.mzML
FILES
RP_lipids_negative
QC4.mzML
FILES
RP_lipids_negative
QC5.mzML
FILES
RP_lipids_negative
QC6.mzML
FILES
RP_lipids_negative
QC7.mzML
FILES
RP_lipids_negative
QC8.mzML
FILES
RP_lipids_negative
QC9.mzML
FILES
RP_lipids_positive
Blank_BD.mzML
FILES
RP_lipids_positive
Blank_DCM.mzML
FILES
RP_lipids_positive
Blank_ML.mzML
FILES
RP_lipids_positive
Blank_ML_start.mzML
FILES
RP_lipids_positive
Blank_MTBE.mzML
FILES
RP_lipids_positive
H11_BD_A.mzML
FILES
RP_lipids_positive
H12_BD_B.mzML
FILES
RP_lipids_positive
H13_BD_C.mzML
FILES
RP_lipids_positive
H14_BD_D.mzML
FILES
RP_lipids_positive
H15_BD_E.mzML
FILES
RP_lipids_positive
H15_BD_E2.mzML
FILES
RP_lipids_positive
H15_BD_E3.mzML
FILES
RP_lipids_positive
H15_BD_E4.mzML
FILES
RP_lipids_positive
H15_BD_E5.mzML
FILES
RP_lipids_positive
H16_DCM_A.mzML
FILES
RP_lipids_positive
H17_DCM_B.mzML
FILES
RP_lipids_positive
H18_DCM_C.mzML
FILES
RP_lipids_positive
H19_DCM_D.mzML
FILES
RP_lipids_positive
H1_ML_A.mzML
FILES
RP_lipids_positive
H20_DCM_E.mzML
FILES
RP_lipids_positive
H20_DCM_E2.mzML
FILES
RP_lipids_positive
H20_DCM_E3.mzML
FILES
RP_lipids_positive
H20_DCM_E4.mzML
FILES
RP_lipids_positive
H20_DCM_E5.mzML
FILES
RP_lipids_positive
H21_MTBE_A.mzML
FILES
RP_lipids_positive
H22_MTBE_B.mzML
FILES
RP_lipids_positive
H23_MTBE_C.mzML
FILES
RP_lipids_positive
H24_MTBE_E.mzML
FILES
RP_lipids_positive
H24_MTBE_E2.mzML
FILES
RP_lipids_positive
H24_MTBE_E3.mzML
FILES
RP_lipids_positive
H24_MTBE_E4.mzML
FILES
RP_lipids_positive
H24_MTBE_E5.mzML
FILES
RP_lipids_positive
H25_MTBE_D.mzML
FILES
RP_lipids_positive
H2_ML_B.mzML
FILES
RP_lipids_positive
H3_ML_C.mzML
FILES
RP_lipids_positive
H4_ML_D.mzML
FILES
RP_lipids_positive
H5_ML_E.mzML
FILES
RP_lipids_positive
H5_ML_E2.mzML
FILES
RP_lipids_positive
H5_ML_E3.mzML
FILES
RP_lipids_positive
H5_ML_E4.mzML
FILES
RP_lipids_positive
H5_ML_E5.mzML
FILES
RP_lipids_positive
K11_BD_A.mzML
FILES
RP_lipids_positive
K12_BD_B.mzML
FILES
RP_lipids_positive
K13_BD_C.mzML
FILES
RP_lipids_positive
K14_BD_D.mzML
FILES
RP_lipids_positive
K15_BD_E.mzML
FILES
RP_lipids_positive
K15_BD_E2.mzML
FILES
RP_lipids_positive
K15_BD_E3.mzML
FILES
RP_lipids_positive
K15_BD_E4.mzML
FILES
RP_lipids_positive
K15_BD_E5.mzML
FILES
RP_lipids_positive
K16_DCM_A.mzML
FILES
RP_lipids_positive
K17_DCM_B.mzML
FILES
RP_lipids_positive
K18_DCM_C.mzML
FILES
RP_lipids_positive
K19_DCM_D.mzML
FILES
RP_lipids_positive
K1_ML_A.mzML
FILES
RP_lipids_positive
K20_DCM_E.mzML
FILES
RP_lipids_positive
K20_DCM_E2.mzML
FILES
RP_lipids_positive
K20_DCM_E3.mzML
FILES
RP_lipids_positive
K20_DCM_E4.mzML
FILES
RP_lipids_positive
K20_DCM_E5.mzML
FILES
RP_lipids_positive
K21_MTBE_A.mzML
FILES
RP_lipids_positive
K22_MTBE_B.mzML
FILES
RP_lipids_positive
K23_MTBE_C.mzML
FILES
RP_lipids_positive
K24_MTBE_D.mzML
FILES
RP_lipids_positive
K25_MTBE_E.mzML
FILES
RP_lipids_positive
K25_MTBE_E2.mzML
FILES
RP_lipids_positive
K25_MTBE_E3.mzML
FILES
RP_lipids_positive
K25_MTBE_E4.mzML
FILES
RP_lipids_positive
K25_MTBE_E5.mzML
FILES
RP_lipids_positive
K2_ML_B.mzML
FILES
RP_lipids_positive
K3_ML_C.mzML
FILES
RP_lipids_positive
K4_ML_D.mzML
FILES
RP_lipids_positive
K5_ML_E.mzML
FILES
RP_lipids_positive
K5_ML_E2.mzML
FILES
RP_lipids_positive
K5_ML_E3.mzML
FILES
RP_lipids_positive
K5_ML_E4.mzML
FILES
RP_lipids_positive
K5_ML_E5.mzML
FILES
RP_lipids_positive
L11_BD_A.mzML
FILES
RP_lipids_positive
L12_BD_B.mzML
FILES
RP_lipids_positive
L13_BD_C.mzML
FILES
RP_lipids_positive
L14_BD_D.mzML
FILES
RP_lipids_positive
L15_BD_E.mzML
FILES
RP_lipids_positive
L15_BD_E2.mzML
FILES
RP_lipids_positive
L15_BD_E3.mzML
FILES
RP_lipids_positive
L15_BD_E4.mzML
FILES
RP_lipids_positive
L15_BD_E5.mzML
FILES
RP_lipids_positive
L16_DCM_A.mzML
FILES
RP_lipids_positive
L17_DCM_B.mzML
FILES
RP_lipids_positive
L18_DCM_C.mzML
FILES
RP_lipids_positive
L19_DCM_D.mzML
FILES
RP_lipids_positive
L1_ML_A.mzML
FILES
RP_lipids_positive
L20_DCM_E.mzML
FILES
RP_lipids_positive
L20_DCM_E2.mzML
FILES
RP_lipids_positive
L20_DCM_E3.mzML
FILES
RP_lipids_positive
L20_DCM_E4.mzML
FILES
RP_lipids_positive
L20_DCM_E5.mzML
FILES
RP_lipids_positive
L21_MTBE_A.mzML
FILES
RP_lipids_positive
L22_MTBE_B.mzML
FILES
RP_lipids_positive
L23_MTBE_C.mzML
FILES
RP_lipids_positive
L24_MTBE_D.mzML
FILES
RP_lipids_positive
L25_MTBE_E.mzML
FILES
RP_lipids_positive
L25_MTBE_E2.mzML
FILES
RP_lipids_positive
L25_MTBE_E3.mzML
FILES
RP_lipids_positive
L25_MTBE_E4.mzML
FILES
RP_lipids_positive
L25_MTBE_E5.mzML
FILES
RP_lipids_positive
L2_ML_B.mzML
FILES
RP_lipids_positive
L3_ML_C.mzML
FILES
RP_lipids_positive
L4_ML_D.mzML
FILES
RP_lipids_positive
L5_ML_E.mzML
FILES
RP_lipids_positive
L5_ML_E2.mzML
FILES
RP_lipids_positive
L5_ML_E3.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
RP_lipids_positive
L5_ML_E4.mzML
FILES
RP_lipids_positive
L5_ML_E5.mzML
FILES
RP_lipids_positive
QC1.mzML
FILES
RP_lipids_positive
QC10.mzML
FILES
RP_lipids_positive
QC11.mzML
FILES
RP_lipids_positive
QC12.mzML
FILES
RP_lipids_positive
QC13.mzML
FILES
RP_lipids_positive
QC14.mzML
FILES
RP_lipids_positive
QC15.mzML
FILES
RP_lipids_positive
QC16.mzML
FILES
RP_lipids_positive
QC17.mzML
FILES
RP_lipids_positive
QC18.mzML
FILES
RP_lipids_positive
QC19.mzML
FILES
RP_lipids_positive
QC2.mzML
FILES
RP_lipids_positive
QC20.mzML
FILES
RP_lipids_positive
QC21.mzML
FILES
RP_lipids_positive
QC22.mzML
FILES
RP_lipids_positive
QC23.mzML
FILES
RP_lipids_positive
QC24_MSMS_150_650.mzML
FILES
RP_lipids_positive
QC25_MSMS_650_750.mzML
FILES
RP_lipids_positive
QC26_MSMS_750_850.mzML
FILES
RP_lipids_positive
QC27_MSMS_850_950.mzML
FILES
RP_lipids_positive
QC28_MSMS_950_2000.mzML
FILES
RP_lipids_positive
QC3.mzML
FILES
RP_lipids_positive
QC4.mzML
FILES
RP_lipids_positive
QC5.mzML
FILES
RP_lipids_positive
QC6.mzML
FILES
RP_lipids_positive
QC7.mzML
FILES
RP_lipids_positive
QC8.mzML
FILES
RP_lipids_positive
QC9.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Extraction Solvent 3 Volume Per Unit Volume
IGNORED:  Samples_Unit.5
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Extraction Solvent 2
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Extraction Solvent 3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Extraction Solvent 3 Volume Percentage
IGNORED:  Samples_Term Accession Number.16
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Term Accession Number.15
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IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
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IGNORED:  Samples_Term Source REF.13
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IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
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IGNORED:  Samples_Sample Type
IGNORED:  Samples_Term Source REF.15
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
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IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
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IGNORED:  Samples_Term Source REF.8
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IGNORED:  Samples_Term Source REF.14
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IGNORED:  Samples_Extraction Solvent 2 Volume Percentage
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Source REF.16
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
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IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 562 rows!
Added 562 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1708
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G1 HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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HVR_190201-B_T3_negative_1.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_10.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_11.mzXML
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DERIVED_FILES
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DERIVED_FILES
HVR_190201-B_T3_negative_16.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_17.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_18.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_19.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_2.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_20.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_22.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_23.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_25.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_26.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_27.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 12%|█▏        | 200/1674 [24:45<4:53:03, 11.93s/it]
 12%|█▏        | 201/1674 [24:50<4:04:38,  9.97s/it]
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_28.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_29.mzXML
FILES
DERIVED_FILES
HVR_190201-B_T3_negative_3.mzXML
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DERIVED_FILES
HVR_190201-B_T3_negative_4.mzXML
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DERIVED_FILES
HVR_190201-B_T3_negative_6.mzXML
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DERIVED_FILES
HVR_190201-B_T3_negative_9.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_1.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_10.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_11.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_12.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_13.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_14.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_15.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_16.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_17.mzXML
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HVR_190201-B_T3_positive_18.mzXML
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HVR_190201-B_T3_positive_19.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_20.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_21.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_22.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_23.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_24.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_25.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_26.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_27.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_28.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_29.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_3.mzXML
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HVR_190201-B_T3_positive_6.mzXML
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DERIVED_FILES
HVR_190201-B_T3_positive_9.mzXML
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DERIVED_FILES
HVR_190202-B_T3_negative_14.mzXML
FILES
DERIVED_FILES
HVR_190202-B_T3_negative_19.mzXML
FILES
DERIVED_FILES
HVR_190202-B_T3_negative_21.mzXML
FILES
DERIVED_FILES
HVR_190202-B_T3_negative_24.mzXML
FILES
DERIVED_FILES
HVR_190202-B_T3_negative_5.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Regeneration Stage
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Organism part
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  keep
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 55 rows!
Added 55 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS160
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1606
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
BHU568_0_NEG_BR1_TR1.mzXML
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BHU568_0_NEG_BR2_TR1.mzXML
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BHU568_0_NEG_BR3_TR1.mzXML
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BHU573_0_NEG_BR1_TR1.mzXML
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BHU573_0_NEG_BR3_TR1.mzXML
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BHU573_0_POS_BR2_TR1.mzXML
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BHU573_0_POS_BR4_TR1.mzXML
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BPK026_0_POS_BR1_TR1.mzXML
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BPK275_0_NEG_BR1_TR1.mzXML
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BPK282_0_NEG_BR1_TR1.mzXML
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BPK282_0_NEG_BR3_TR1.mzXML
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BPK282_0_POS_BR1_TR1.mzXML
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BPK282_0_POS_BR2_TR1.mzXML
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BPK282_0_POS_BR3_TR1.mzXML
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BPK282_0_POS_BR4_TR1.mzXML
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BPK406_6_NEG_BR1_TR1.mzXML
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BPK406_6_NEG_BR2_TR1.mzXML
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BPK406_6_NEG_BR3_TR1.mzXML
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BPK406_6_NEG_BR4_TR1.mzXML
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BPK406_6_POS_BR1_TR1.mzXML
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BPK406_6_POS_BR2_TR1.mzXML
FILES
BPK406_6_POS_BR3_TR1.mzXML
FILES
BPK406_6_POS_BR4_TR1.mzXML
FILES
BPK519_12_NEG_BR1_TR1.mzXML
FILES
BPK519_12_NEG_BR2_TR1.mzXML
FILES
BPK519_12_NEG_BR3_TR1.mzXML
FILES
BPK519_12_NEG_BR4_TR1.mzXML
FILES
BPK519_12_POS_BR1_TR1.mzXML
FILES
BPK519_12_POS_BR2_TR1.mzXML
FILES
BPK519_12_POS_BR3_TR1.mzXML
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BPK519_12_POS_BR4_TR1.mzXML
FILES
BPK604_0_NEG_BR1_TR1.mzXML
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BPK604_0_NEG_BR2_TR1.mzXML
FILES
BPK604_0_NEG_BR3_TR1.mzXML
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BPK604_0_NEG_BR4_TR1.mzXML
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BPK604_0_POS_BR3_TR1.mzXML
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BPK604_0_POS_BR4_TR1.mzXML
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BPK612_0_NEG_BR3_TR1.mzXML
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BPK612_0_POS_BR2_TR1.mzXML
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BPK612_0_POS_BR3_TR1.mzXML
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BPK612_0_POS_BR4_TR1.mzXML
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blank_NEG_1.mzXML
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blank_NEG_2.mzXML
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blank_NEG_3.mzXML
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blank_NEG_4.mzXML
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blank_POS_1.mzXML
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blank_POS_2.mzXML
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blank_POS_3.mzXML
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blank_POS_4.mzXML
IGNORED:  Samples_Treatment outcome
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Biospecimen
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 12%|█▏        | 202/1674 [25:00<4:04:42,  9.97s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 12%|█▏        | 203/1674 [25:06<3:32:26,  8.67s/it]
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 76 rows!
Added 76 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10690
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
FLP003_p001.raw
FILES
FLP003_p002.raw
FILES
FLP003_p003.raw
FILES
FLP003_p004.raw
FILES
FLP003_p005.raw
FILES
FLP003_p006.raw
FILES
FLP003_p007.raw
FILES
FLP003_p008.raw
FILES
FLP003_p009.raw
FILES
FLP003_p010.raw
FILES
FLP003_p011.raw
FILES
FLP003_p012.raw
FILES
FLP003_p013.raw
FILES
FLP003_p014.raw
FILES
FLP003_p015.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  extension
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS107
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
Zeax_A_221a.raw
FILES
Zeax_A_222f.raw
FILES
Zeax_A_223a.raw
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Zeax_A_223c.raw
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Zeax_A_223d.raw
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Zeax_A_223e.raw
FILES
Zeax_A_223i.raw
FILES
Zeax_A_224a.raw
FILES
Zeax_A_224d.raw
FILES
Zeax_A_224f.raw
FILES
Zeax_A_290g.raw
FILES
Zeax_A_291e.raw
FILES
Zeax_B_220d.raw
FILES
Zeax_B_220e.raw
FILES
Zeax_B_221e.raw
FILES
Zeax_B_222g.raw
FILES
Zeax_B_222i.raw
FILES
Zeax_B_223h.raw
FILES
Zeax_B_224g.raw
FILES
Zeax_B_224h.raw
FILES
Zeax_B_224i.raw
FILES
Zeax_B_290a.raw
FILES
Zeax_B_290e.raw
FILES
Zeax_B_291g.raw
FILES
Zeax_C_220h.raw
FILES
Zeax_C_221f.raw
FILES
Zeax_C_221i.raw
FILES
Zeax_C_221j.raw
FILES
Zeax_C_223j.raw
FILES
Zeax_C_223l.raw
FILES
Zeax_C_223m.raw
FILES
Zeax_C_223n.raw
FILES
Zeax_C_224j.raw
FILES
Zeax_C_224k.raw
FILES
Zeax_C_224l.raw
FILES
Zeax_C_290h.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  extension
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IGNORED:  Samples_Carotenoids
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 12%|█▏        | 207/1674 [25:30<2:47:07,  6.84s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS161
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1627
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10856
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Q Exactive HFX: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QC01.raw
FILES
QC02.raw
FILES
QC03.raw
FILES
QC04.raw
FILES
QC05.raw
FILES
YK-R-1.raw
FILES
YK-R-15.raw
FILES
YK-R-16.raw
FILES
YK-R-17.raw
FILES
YK-R-18.raw
FILES
YK-R-19.raw
FILES
YK-R-2.raw
FILES
YK-R-20.raw
FILES
YK-R-21.raw
FILES
YK-R-3.raw
FILES
YK-R-4.raw
FILES
YK-R-5.raw
FILES
YK-R-6.raw
FILES
YK-R-7.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 19 rows!
Added 19 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1642
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
ChromatographyAndPhase:
   (C18): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CB_T_seminal_plasma_Neg_1.mzML
FILES
CB_T_seminal_plasma_Neg_2.mzML
FILES
CB_T_seminal_plasma_Neg_3.mzML
FILES
CB_T_seminal_plasma_Pos_1.mzML
FILES
CB_T_seminal_plasma_Pos_2.mzML
FILES
CB_T_seminal_plasma_Pos_3.mzML
FILES
CB_T_spermatozoa_Neg_1.mzML
FILES
CB_T_spermatozoa_Neg_2.mzML
FILES
CB_T_spermatozoa_Neg_3.mzML
FILES
CB_T_spermatozoa_Pos_1.mzML
FILES
CB_T_spermatozoa_Pos_2.mzML
FILES
CB_T_spermatozoa_Pos_3.mzML
FILES
CB_seminal_plasma_Neg_1.mzML
FILES
CB_seminal_plasma_Neg_2.mzML
FILES
CB_seminal_plasma_Neg_3.mzML
FILES
CB_seminal_plasma_Pos_1.mzML
FILES
CB_seminal_plasma_Pos_2.mzML
FILES
CB_seminal_plasma_Pos_3.mzML
FILES
CB_spermatozoa_Neg_1.mzML
FILES
CB_spermatozoa_Neg_2.mzML
FILES
CB_spermatozoa_Neg_3.mzML
FILES
CB_spermatozoa_Pos_1.mzML
FILES
CB_spermatozoa_Pos_2.mzML
FILES
CB_spermatozoa_Pos_3.mzML
FILES
MG_seminal_plasma_Neg_1.mzML
FILES
MG_seminal_plasma_Neg_2.mzML
FILES
MG_seminal_plasma_Neg_3.mzML
FILES
MG_seminal_plasma_Pos_1.mzML
FILES
MG_seminal_plasma_Pos_2.mzML
FILES
MG_seminal_plasma_Pos_3.mzML
FILES
MG_spermatozoa_Neg_1.mzML
FILES
MG_spermatozoa_Neg_2.mzML
FILES
MG_spermatozoa_Neg_3.mzML
FILES
MG_spermatozoa_Pos_1.mzML
FILES
MG_spermatozoa_Pos_2.mzML
FILES
MG_spermatozoa_Pos_3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS172
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1720
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G2 HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
10_MESO_C18_SPE-276_MS2_A_P_20200304_0606.CDF
FILES
11_MESO_C18_SPE-276_MS2_A_P_20200205_701.CDF
FILES
12_MESO_C18_SPE-276_MS2_A_P_20200304_0607.CDF
FILES
13_MESO_C18_SPE-262_MS2_A_P_20191208_1705.CDF
FILES
14_MESO_C18_SPE-276_MS2_A_N_20200304_0506.CDF
FILES
14_MESO_C18_SPE-276_MS2_A_P_20200304_0610.CDF
FILES
14_VICE_GS115_C18_587_MS2_A_N_20200419_0311.CDF
FILES
16_MESO_C18_SPE-262_MS2_A_P_20191208_1706.CDF
FILES
16_MESO_C18_SPE-276_MS2_A_N_20200304_0507.CDF
FILES
21_MESO_C18_SPE-276_MS2_A_N_20200304_0501.CDF
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21_VICE_GS115_C18_587_MS2_A_N_20200419_0301.CDF
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23_VICE_GS115_C18_580_MS2_A_N_20200419_0204.CDF
FILES
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FILES
25_VICE_GS115_C18_587_MS2_A_N_20200419_0305.CDF
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26_VICE_GS115_C18_580_MS2_A_N_20200419_0207.CDF
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27_VICE_GS115_C18_587_MS2_A_N_20200419_0308.CDF
FILES
28_VICE_GS115_C18_580_MS2_A_N_20200419_0211.CDF
FILES
29_VICE_GS115_C18_580_MS2_A_N_20200419_0214.CDF
FILES
2_MESO_C18_SPE-262_MS2_B_P_20191208_1801.CDF
FILES
3_MESO_C18_SPE-276_MS2_A_N_20200304_0502.CDF
FILES
3_MESO_C18_SPE-276_MS2_A_P_20200304_0601.CDF
FILES
3_VICE_GS115_C18_587_MS2_A_N_20200419_0302.CDF
FILES
4_6_10_23_MESO_C18_SPE-276_MS2_B_20V_N_20191209_0801.CDF
FILES
4_6_MESO_C18_SPE-276_MS2_A_P_20200304_0603.CDF
FILES
5_MESO_C18_SPE-262_MS2_A_N_20191209_0301.CDF
FILES
5_MESO_C18_SPE-262_MS2_B_P_20191208_1802.CDF
FILES
5_MESO_C18_SPE-276_MS2_C_20V_N_20191209_0601.CDF
FILES
5_MESO_C18_SPE-276_MS2_C_30V_N_20191209_0701.CDF
FILES
5_VICE_GS115_C18_587_MS2_A_N_20200419_0304.CDF
FILES
7_MESO_C18_SPE-276_MS2_A_N_20200304_0504.CDF
FILES
7_MESO_C18_SPE-276_MS2_A_P_20200304_0604.CDF
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7_VICE_GS115_C18_587_MS2_A_N_20200419_0306.CDF
FILES
8_MESO_C18_SPE-262_MS2_A_N_20191209_0302.CDF
FILES
8_MESO_C18_SPE-262_MS2_A_P_20191208_1703.CDF
FILES
8_MESO_C18_SPE-276_MS2_C_20V_N_20191209_0602.CDF
FILES
8_MESO_C18_SPE-276_MS2_C_30V_N_20191209_0702.CDF
FILES
8_VICE_GS115_C18_587_MS2_A_N_20200419_0307.CDF
FILES
9_MESO_C18_SPE-276_MS2_A_N_20200304_0505.CDF
FILES
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Meso_C18_SPE-92_p_20190318_51_01.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 20
Returning 165 rows!
Added 165 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS173
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
ENVOEnvironmentBiome:
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IGNORED:  Samples_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 13%|█▎        | 213/1674 [26:09<2:22:24,  5.85s/it]
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 131 rows!
Added 131 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS174
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1746
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
IonizationSourceAndPolarity:
   (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20190613_MS1_A19r-18.RAW
FILES
20190614_MS1_A19r-20.RAW
FILES
20190822_MS1_A19r-19.RAW
FILES
20190828_MS1_A19r-22.RAW
FILES
MS1_20180130_PO_1200.RAW
FILES
MS1_20180404_PO_1200.RAW
FILES
MS1_20180405_PO_1200.RAW
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Max dimension x
IGNORED:  Assay_Stain
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Linescan sequence
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Target material
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Resolving power m/z
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Tissue modification
IGNORED:  Assay_Unit.3
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Unit.2
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Assay_High-res image
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
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IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Resolving power
IGNORED:  Assay_Unit.5
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Scan type
IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Low-res image
IGNORED:  Assay_Matrix application
IGNORED:  keep
IGNORED:  Assay_Line scan direction
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Max count of pixel x
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Assay_Scan pattern
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Sample preservation
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Instrument software version
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Section thickness
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Matrix
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Pixel size y
IGNORED:  Assay_Solvent
IGNORED:  Assay_Term Source REF.15
IGNORED:  Assay_Spectrum representation
IGNORED:  filename_lower
IGNORED:  Assay_Data Transformation software
IGNORED:  Samples_Replicate
IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Spatial resolution
IGNORED:  Assay_Term Accession Number.17
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 7 rows!
Added 7 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1751
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion Lumos Tribrid: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
mtab_deriv_020819_154.raw
FILES
mtab_deriv_020819_155.raw
FILES
mtab_deriv_020819_156.raw
FILES
mtab_deriv_020819_157.raw
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
mtab_deriv_020819_163.raw
FILES
mtab_deriv_020819_164.raw
FILES
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FILES
mtab_deriv_020819_166.raw
FILES
mtab_deriv_020819_167.raw
FILES
mtab_deriv_020819_168.raw
FILES
mtab_deriv_020819_169.raw
FILES
mtab_deriv_020819_170.raw
FILES
mtab_deriv_020819_171.raw
FILES
mtab_deriv_020819_172.raw
FILES
mtab_deriv_020819_173.raw
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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mtab_deriv_020819_174.raw
FILES
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FILES
mtab_deriv_020819_67.raw
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mtab_deriv_020819_68.raw
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mtab_deriv_020819_69.raw
FILES
mtab_deriv_020819_70.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 38
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1752
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Vantage: missing value
FILES
Mtab_DeepDOM_AE1319_tsq_109.raw
FILES
Mtab_DeepDOM_AE1319_tsq_109.raw
FILES
Mtab_DeepDOM_AE1319_tsq_110.raw
FILES
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Cast
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Depth
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Sample group
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_Cruise
IGNORED:  extension
IGNORED:  Samples_Station
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Samples_Longitude
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Latitude
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 428 rows!
Added 214 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1755
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6224 Accurate-Mass TOF: missing value
  Agilent 6520 Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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D7A2 Ole.d/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.5
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IGNORED:  Samples_Organism part
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IGNORED:  Samples_Variant
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Samples_Term Source REF.4
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 127 rows!
Added 127 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1757
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.8
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IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 48
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS176
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11250
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1764
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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QCMatrix_07_RA5.mzML
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QCSolvent_06_RA4.mzML
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S07MurineECCtrl_17_RB4.mzML
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S10MurineECKO_21_RB7.mzML
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S11MurineECKO_22_RB8.mzML
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S12MurineECKO_23_RC1.mzML
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1765
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Waters SYNAPT G2-Si: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Loic19-1485.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 13%|█▎        | 221/1674 [27:00<2:25:58,  6.03s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Class
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Batch
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 255 rows!
Added 255 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1778
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1782
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Focus: missing value
IonizationSourceAndPolarity:
  electron ionization (alternating): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Samples_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 13%|█▎        | 223/1674 [27:07<2:04:59,  5.17s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 13%|█▎        | 224/1674 [27:14<2:14:41,  5.57s/it]
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 11
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1783
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 101 rows!
Added 101 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1785
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 13%|█▎        | 225/1674 [27:19<2:13:37,  5.53s/it]
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  X500R QTOF: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1679
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 14%|█▎        | 226/1674 [27:26<2:19:22,  5.77s/it]
IGNORED:  Samples_Gnotobiotic Model
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Location
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Sample type_1
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 61 rows!
Added 61 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1791
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 256 rows!
Added 256 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1794
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1796
Request successful!
SampleCollectionMethod: ADDED!
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FILES
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IGNORED:  Assay_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.2
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Number of rows removed due to not enough metadata: 0
Returning 132 rows!
Added 132 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1797
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1801
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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qiita_sample_name: ADDED!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
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IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
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IGNORED:  Is Multicellular
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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Growth Location
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Growth Year
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IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 813 rows!
Added 813 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1684
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1183
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1803
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Request successful!
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Request successful!
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Country: ADDED!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 14%|█▍        | 236/1674 [28:41<2:29:24,  6.23s/it]
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Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS181
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.15/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS171
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1812
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS182
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SampleCollectionMethod: ADDED!
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Returning 28 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1823
Request successful!
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IGNORED:  Assay_Term Accession Number.11
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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 14%|█▍        | 241/1674 [29:29<5:10:01, 12.98s/it]
 14%|█▍        | 242/1674 [29:30<3:47:58,  9.55s/it]
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Accession Number.15
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
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IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Primary fermentation conditions
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Number of rows removed due to not enough metadata: 34
Returning 956 rows!
Added 956 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1825
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1829
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.8
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Time point
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IGNORED:  Assay_Scan polarity
IGNORED:  Assay_FIA Instrument
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
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IGNORED:  keep
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IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
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IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Technical replicate - Sampling
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IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Technical replicate - MS assay
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 304 rows!
Added 304 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1830
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Shimadzu GCMS-TQ8040: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
290-261-0h-R1.CDF
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Secondary fermentation conditions
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Samples_Primary fermentation incubation time point
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_Secondary fermentation incubation time point
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_ferment taxonomic information
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Primary fermentation conditions
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Samples_Bacterial strain Internal stock ID
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 21 rows!
Added 21 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1839
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1842
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker impact II UHR-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
DDA_BMIF1442_0.mzXML
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DDA_PB1874_0.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Full_BMIF1442_29.mzXML
FILES
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Full_BMIF1896_29.mzXML
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Full_PB1896_29.mzXML
FILES
Full_PB2019_0.mzXML
FILES
Full_PB2019_29.mzXML
FILES
Full_PB2035_0.mzXML
FILES
Full_PB2035_29.mzXML
FILES
HILIC_MB_DDA.mzXML
FILES
HILIC_MB_DIA.mzXML
FILES
HILIC_MB_Fullscan.mzXML
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RP_MB_DDA.mzXML
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RP_MB_Fullscan.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Acquisition mode
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 66 rows!
Added 66 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1846
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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  LECO Pegasus HT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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FILES
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K-1-2.CDF
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K-1-3.CDF
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K-1-4.CDF
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K-1-5.CDF
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N-3-2.CDF
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N-5-1.CDF
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N-5-2.CDF
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Y18E08_P062Y18E07_STA01_T004_CAL5_104.CDF
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Y18E08_P062Y18E07_STA01_T004_CAL6_103.CDF
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Y18E08_P062Y18E07_STA01_T004_CAL6_104.CDF
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Y18E08_P062Y18E07_STA01_T004_CAL6_105.CDF
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Y18E08_P062Y18E07_STA01_T004_CAL7_101.CDF
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Y18E08_P062Y18E07_STA01_T004_CAL7_102.CDF
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Y18E08_P062Y18E07_STA01_T004_CAL7_103.CDF
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Y18E08_P062Y18E07_STA01_T004_CAL7_104.CDF
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Y18E08_P062Y18E07_STA01_T004_CAL7_105.CDF
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 15%|█▍        | 247/1674 [30:00<2:43:06,  6.86s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 15%|█▍        | 248/1674 [30:05<2:26:21,  6.16s/it]
 15%|█▍        | 249/1674 [30:06<1:50:24,  4.65s/it]
IGNORED:  Samples_Protocol REF
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 40
Returning 90 rows!
Added 90 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1847
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ 8000: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
DERIVED_FILES
101_NM-control.cdf
FILES
DERIVED_FILES
102_NM-control.cdf
FILES
DERIVED_FILES
103_NM-control.cdf
FILES
DERIVED_FILES
110_NM-Pb.cdf
FILES
DERIVED_FILES
111_NM-Pb.cdf
FILES
DERIVED_FILES
112_NM-Pb.cdf
FILES
DERIVED_FILES
116_R33Pb.cdf
FILES
DERIVED_FILES
117_R33Pb.cdf
FILES
DERIVED_FILES
118_R33Pb.cdf
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 9 rows!
Added 9 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1858
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1861
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
FILES
20171130_ma_f2-467.mzML
FILES
ADP_phosphate_mix_neg-447.mzML
FILES
Acetyl_CoA_NAD_mix-444.mzML
FILES
Amino_acid_Std__neg_Alanine-412.mzML
FILES
Amino_acid_Std__neg_Alanine-423.mzML
FILES
Amino_acid_Std__neg_Argenine1-413.mzML
FILES
Amino_acid_Std__neg_Isoleucine_170323045537-419.mzML
FILES
Amino_acid_Std__neg_Isoleucine_170323045537-426.mzML
FILES
Amino_acid_Std__pos_Alanine-428.mzML
FILES
Amino_acid_Std_mic_neg-396.mzML
FILES
Amino_acid_Std_mic_pos-395.mzML
FILES
Amino_acid_Std_neg_Aspargine-429.mzML
FILES
Amino_acid_Std_neg_Aspartic_acid-430.mzML
FILES
Amino_acid_Std_neg_Cysteine-431.mzML
FILES
Amino_acid_Std_neg_Glutamic_acid-432.mzML
FILES
Amino_acid_Std_neg_Glutamine-433.mzML
FILES
Amino_acid_Std_neg_Glycine-414.mzML
FILES
Amino_acid_Std_neg_Glycine-417.mzML
FILES
Amino_acid_Std_neg_Glycine-422.mzML
FILES
Amino_acid_Std_neg_Glycine-434.mzML
FILES
Amino_acid_Std_neg_Histidine_170323051524-435.mzML
FILES
Amino_acid_Std_neg_Leucine-436.mzML
FILES
Amino_acid_Std_neg_Lysine-437.mzML
FILES
Amino_acid_Std_neg_Methionie--438.mzML
FILES
Amino_acid_Std_neg_Proline-439.mzML
FILES
Amino_acid_Std_neg_Serine-440.mzML
FILES
Amino_acid_Std_neg_Threonine-441.mzML
FILES
Amino_acid_Std_neg_Tryptophan-442.mzML
FILES
Amino_acid_Std_neg_Tyrosine-443.mzML
FILES
BLK_MEOH_IPA-380.mzML
FILES
BLK_MEOH_IPA-381.mzML
FILES
CAPRIC_POS-387.mzML
FILES
DHA-384.mzML
FILES
DHA-388.mzML
FILES
Dipali_Lipid_std_7PC_liver_neg-468.mzML
FILES
Fatty_acid_mix_Elena_neg_amo_act-392.mzML
FILES
Fatty_acid_mix_Elena_neg_amo_act2-389.mzML
FILES
IROA_PLATE__ce_neg_1_A.mzML
FILES
IROA_PLATE_ce_neg_1_C.mzML
FILES
IROA_PLATE_ce_neg_1_D.mzML
FILES
IROA_PLATE_ce_neg_1_E.mzML
FILES
IROA_PLATE_ce_neg_1_F.mzML
FILES
IROA_PLATE_ce_neg_1_G.mzML
FILES
IROA_PLATE_neg_1_B.mzML
FILES
IROA_PLATE_neg_1_H.mzML
FILES
IROA_PLATE_neg_2_A.mzML
FILES
IROA_PLATE_neg_2_B.mzML
FILES
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Lipid_118_119_pos.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 382
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1228
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977B MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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N1_13Cglutamine20min_intra.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 15%|█▍        | 251/1674 [30:26<2:51:31,  7.23s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_isotopic label
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Cell type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
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IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Supplement
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Post extraction labelling
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Biological replicate sample
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 154 rows!
Added 154 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1866
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus BT 4D GCxGC-TOFMS: missing value
  Thermo Scientific Q Exactive Plus: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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111_n.mzML
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31_n.mzML
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34_n.mzML
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36_n.mzML
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38_n.mzML
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39_n.mzML
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40_n.mzML
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41_n.mzML
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42_n.mzML
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43_n.mzML
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Lipidomic_COVID-19_ESI Negative
44_n.mzML
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Lipidomic_COVID-19_ESI Negative
45_n.mzML
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46_n.mzML
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Lipidomic_COVID-19_ESI Negative
47_n.mzML
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48_n.mzML
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4POS_n.mzML
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56_n.mzML
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61_n.mzML
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62_n.mzML
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63_n.mzML
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Lipidomic_COVID-19_ESI Negative
64_n.mzML
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Lipidomic_COVID-19_ESI Negative
66_n.mzML
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Lipidomic_COVID-19_ESI Negative
67_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
68_n.mzML
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69_n.mzML
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6POS_n.mzML
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70_n.mzML
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71_n.mzML
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Lipidomic_COVID-19_ESI Negative
72_n.mzML
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Lipidomic_COVID-19_ESI Negative
74_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
78_n.mzML
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Lipidomic_COVID-19_ESI Negative
79_n.mzML
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Lipidomic_COVID-19_ESI Negative
80_n.mzML
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Lipidomic_COVID-19_ESI Negative
82_n.mzML
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Lipidomic_COVID-19_ESI Negative
83_n.mzML
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Lipidomic_COVID-19_ESI Negative
84_n.mzML
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89_n.mzML
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Lipidomic_COVID-19_ESI Negative
8POS_n.mzML
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93DLMC_n.mzML
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Lipidomic_COVID-19_ESI Negative
94_n.mzML
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Lipidomic_COVID-19_ESI Negative
95_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
97_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
98_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
99_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
9POS_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
9_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
AA_n.mzML
FILES
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CE_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
CM_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
IRA_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
RI_n.mzML
FILES
Lipidomic_COVID-19_ESI Negative
SG_n.mzML
FILES
Lipidomic_COVID-19_ESI Positive
101_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
104_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
106_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
108_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
109_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
111_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
125_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
126_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
127_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
129_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
12POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
12_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
130_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
132_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
134_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
136_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
138_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
139_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
13POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
14POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
14_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
15POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
16POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
18_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
1_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
20_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
24_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
26_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
27_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
2POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
31_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
34_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
36_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
38_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
39_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
3POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
40_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
41_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
42_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
43_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
44_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
45_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
46_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
47_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
48_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
4POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
4_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
56_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
61_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
62_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
63_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
64_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
66_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
67_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
68_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
69_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
6POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
70_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
71_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
72_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
74_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
78_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
79_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
80_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
82_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
83_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
84_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
89_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
8POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
93DLMC_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
94_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
95_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
97_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
98_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
99_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
9POS_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
9_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
AA_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
CE_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
CM_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
IRA_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
RI_p.mzML
FILES
Lipidomic_COVID-19_ESI Positive
SG_p.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
10SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
11SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
12SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
13SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
1SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
2SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
3SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
4SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
5SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
6SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
7SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
8SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
9SA_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
AI_sano_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
A_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
B_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
C_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
D_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
EA_sano_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
EB_sano_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
EM_sano_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
MC_sano_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
MM_sano_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
NC_sano_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
SC_sani_n.mzML
FILES
Lipidomic_HEALTHY_ESI Negative
ST_sano_n.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
10SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
11SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
12SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
13SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
1SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
2SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
3SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
4SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
5SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
6SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
7SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
8SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
9SA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
AI_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
A_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
B_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
C_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
D_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
EA_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
EB_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
EM_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
MC_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
MM_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
NC_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
SC_p.mzML
FILES
Lipidomic_HEALTHY_ESI Positive
ST_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA10_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA11_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA12_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA14_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA17_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA18_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA1_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA21_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA2_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA3_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA4_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA5_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA6_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA7_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA8_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
DA9_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
RIA1_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Negative
RIA2_n.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA10_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA11_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA12_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA14_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA17_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA18_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA1_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA21_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA2_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA3_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA4_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA5_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA6_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA7_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA8_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
DA9_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
RIA1_p.mzML
FILES
Lipidomic_ICU COVID-19_ESI Positive
RIA2_p.mzML
FILES
Lipidomic_ICU_ESI Negative
DA20_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA23_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA24_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA25_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA26_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA28_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA39_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA40_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA41_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA42_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA43_n.mzML
FILES
Lipidomic_ICU_ESI Negative
DA44_n.mzML
FILES
Lipidomic_ICU_ESI Positive
DA20_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA23_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA24_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA25_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA26_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA28_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA39_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA40_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA41_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA42_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA43_p.mzML
FILES
Lipidomic_ICU_ESI Positive
DA44_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
12NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
16NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
19NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
20NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
21NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
22NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
26NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
28NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
29NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
30NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
32NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
35NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
37NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
46NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
5NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Negative
6NEG_n.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
12NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
16NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
19NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
20NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
21NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
22NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
26NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
28NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
29NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
30NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
32NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
35NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
37NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
46NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
5NEG_p.mzML
FILES
Lipidomic_NON-COVID-19_ESI Positive
6NEG_p.mzML
FILES
NON-COVID-19
12 NEG.mzML
FILES
NON-COVID-19
16 NEG.mzML
FILES
NON-COVID-19
19 NEG.mzML
FILES
NON-COVID-19
20 NEG.mzML
FILES
NON-COVID-19
21 NEG.mzML
FILES
NON-COVID-19
22 NEG.mzML
FILES
NON-COVID-19
26 NEG.mzML
FILES
NON-COVID-19
28 NEG.mzML
FILES
NON-COVID-19
29 NEG.mzML
FILES
NON-COVID-19
30 NEG.mzML
FILES
NON-COVID-19
32 NEG.mzML
FILES
NON-COVID-19
35 NEG.mzML
FILES
NON-COVID-19
37 NEG.mzML
FILES
NON-COVID-19
46 NEG.mzML
FILES
NON-COVID-19
5 NEG.mzML
FILES
NON-COVID-19
6 NEG.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Medical case
IGNORED:  Samples_Organism part
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 15%|█▌        | 252/1674 [30:38<3:26:19,  8.71s/it]
IGNORED:  Samples_Variant
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_Patient status
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_Column type 1
IGNORED:  Assay_Column type 2
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Column model 2
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Column model 1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 467 rows!
Added 467 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1876
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
mzML-FIA
Blank_ISTD_LILY_fiaDIA_posneg_1.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_ISTD_LILY_fiaDIA_posneg_2.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_ISTD_LILY_fiaDIA_posneg_3.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_Solvent_no_fiaDIA_posneg_1_switch.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_Solvent_no_fiaDIA_posneg_2.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_Solvent_no_fiaDIA_posneg_3_switch.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_Solvent_no_fiaDIA_posneg_4.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_Solvent_no_fiaDIA_posneg_5_switch.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_Solvent_no_fiaDIA_posneg_6.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_Solvent_no_fiaDIA_posneg_7_switch.mzML
FILES
DERIVED_FILES
mzML-FIA
Blank_Solvent_no_fiaDIA_posneg_8.mzML
FILES
DERIVED_FILES
mzML-FIA
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plasma_Male10_LILY_rpMS1_posneg_3_Splash.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 96
Returning 134 rows!
Added 134 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1885
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Geographical location
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Litter type
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 675 rows!
Added 135 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1887
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  extension/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Sample type_1
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Number of rows removed due to not enough metadata: 0
Returning 216 rows!
Added 216 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS189
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1890
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1892
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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qiita_sample_name: ADDED!
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  : missing value
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IGNORED:  Assay_Chromatography Instrument/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 15%|█▌        | 258/1674 [31:20<2:33:34,  6.51s/it]
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Assay_Term Source REF.6
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Number of rows removed due to not enough metadata: 1
Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1903
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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FILES
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POOL_POS8_BA5_01_16940.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_sampleType
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Assay_injectionOrder
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Gene_name
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Gene
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_BW
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_IMPC_genotype
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_class
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_IMPC_ID
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_R Renamed
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_PFEM_InjOrder
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_IMPC_phenotype
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_batch
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 375 rows!
Added 375 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1906
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
FILES
RAW_FILES
NEG
1-MePYR_Neg.wiff
FILES
RAW_FILES
NEG
17b-estradiol-3-sulfate_Neg.wiff
FILES
RAW_FILES
NEG
2,4-DHBA_Neg.wiff
FILES
RAW_FILES
NEG
2,6-DHBA_Neg.wiff
FILES
RAW_FILES
NEG
2,6-diaminopimelic_Neg.wiff
FILES
RAW_FILES
NEG
2-HBA-G_Neg.wiff
FILES
RAW_FILES
NEG
2-HBA_Neg.wiff
FILES
RAW_FILES
NEG
2-HHA_Neg.wiff
FILES
RAW_FILES
NEG
2-HPAA_Neg.wiff
FILES
RAW_FILES
NEG
2-HPA_Neg.wiff
FILES
RAW_FILES
NEG
2-HPPA_Neg.wiff
FILES
RAW_FILES
NEG
2-MePYR_Neg.wiff
FILES
RAW_FILES
NEG
2-aminoadipic_Neg.wiff
FILES
RAW_FILES
NEG
2-hydroxyglutaric_Neg.wiff
FILES
RAW_FILES
NEG
2-isopropylmalic_Neg.wiff
FILES
RAW_FILES
NEG
2-methylglutaric_Neg.wiff
FILES
RAW_FILES
NEG
2-oxoadipic_Neg.wiff
FILES
RAW_FILES
NEG
2-oxobutyric_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHBA-3G_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHBA-3S_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHBA-4G_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHBA-4S_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHBA_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHPAA_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHPHVA_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHPV-3G_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHPV-4G_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHPV-4S_Neg.wiff
FILES
RAW_FILES
NEG
3,4-DHPV_Neg.wiff
FILES
RAW_FILES
NEG
3,4-dihydroxymandelic_Neg.wiff
FILES
RAW_FILES
NEG
3,4-dihydroxyphenylglycol_Neg.wiff
FILES
RAW_FILES
NEG
3,4-dihydroxyphenyllactic_Neg.wiff
FILES
RAW_FILES
NEG
3,5-DHBA-S_Neg.wiff
FILES
RAW_FILES
NEG
3,5-DHBA_Neg.wiff
FILES
RAW_FILES
NEG
3,5-DHCA_Neg.wiff
FILES
RAW_FILES
NEG
3,5-DHPPA-G_Neg.wiff
FILES
RAW_FILES
NEG
3,5-DHPPA-S_Neg.wiff
FILES
RAW_FILES
NEG
3,5-DHPPA_Neg.wiff
FILES
RAW_FILES
NEG
3,5-DHPV-G_Neg.wiff
FILES
RAW_FILES
NEG
3,5-DHPV-S_Neg.wiff
FILES
RAW_FILES
NEG
3-CQA_Neg.wiff
FILES
RAW_FILES
NEG
3-HBA_Neg.wiff
FILES
RAW_FILES
NEG
3-HBAld_Neg.wiff
FILES
RAW_FILES
NEG
3-HHANeg.wiff
FILES
RAW_FILES
NEG
3-HPAA_Neg.wiff
FILES
RAW_FILES
NEG
3-HPHPA_Neg.wiff
FILES
RAW_FILES
NEG
3-HPPA_Neg.wiff
FILES
RAW_FILES
NEG
3-HPV-G_Neg.wiff
FILES
RAW_FILES
NEG
3-HPV-S_Neg.wiff
FILES
RAW_FILES
NEG
3-MeGA_Neg.wiff
FILES
RAW_FILES
NEG
3-hydroxybutyric_Neg.wiff
FILES
RAW_FILES
NEG
3-hydroxymethylglutaric_Neg.wiff
FILES
RAW_FILES
NEG
3-methyl-2-oxovaleric_Neg.wiff
FILES
RAW_FILES
NEG
3_-MeEC_Neg.wiff
FILES
RAW_FILES
NEG
4-CQA_Neg.wiff
FILES
RAW_FILES
NEG
4-HBA-G_Neg.wiff
FILES
RAW_FILES
NEG
4-HBA-S_Neg.wiff
FILES
RAW_FILES
NEG
4-HBA_Neg.wiff
FILES
RAW_FILES
NEG
4-HBAld_Neg.wiff
FILES
RAW_FILES
NEG
4-HBP_Neg.wiff
FILES
RAW_FILES
NEG
4-HDCF_Neg.wiff
FILES
RAW_FILES
NEG
4-HHA_Neg.wiff
FILES
RAW_FILES
NEG
4-HPAA_Neg.wiff
FILES
RAW_FILES
NEG
4-HPPA_Neg.wiff
FILES
RAW_FILES
NEG
4-HPV-S_Neg.wiff
FILES
RAW_FILES
NEG
4-MeCAT_Neg.wiff
FILES
RAW_FILES
NEG
4-MeGA_Neg.wiff
FILES
RAW_FILES
NEG
4-MeUMB-G_Neg.wiff
FILES
RAW_FILES
NEG
4-MeUMB-S_Neg.wiff
FILES
RAW_FILES
NEG
4-hydroxyphenyllactic_Neg.wiff
FILES
RAW_FILES
NEG
4-hydroxyphenylpyruvic_Neg.wiff
FILES
RAW_FILES
NEG
4-methyl-2-oxovaleric_Neg.wiff
FILES
RAW_FILES
NEG
4_-MeEC_Neg.wiff
FILES
RAW_FILES
NEG
5-CQA_Neg.wiff
FILES
RAW_FILES
NEG
5-aminolevulinic_Neg.wiff
FILES
RAW_FILES
NEG
5-hydroxyhexanoic_Neg.wiff
FILES
RAW_FILES
NEG
AMPA_Neg.wiff
FILES
RAW_FILES
NEG
APAP-G_Neg.wiff
FILES
RAW_FILES
NEG
APAP_Neg.wiff
FILES
RAW_FILES
NEG
API-7G_Neg.wiff
FILES
RAW_FILES
NEG
API_Neg.wiff
FILES
RAW_FILES
NEG
BA_Neg.wiff
FILES
RAW_FILES
NEG
BERG_Neg.wiff
FILES
RAW_FILES
NEG
BP1_Neg.wiff
FILES
RAW_FILES
NEG
BP3_Neg.wiff
FILES
RAW_FILES
NEG
BPA_Neg.wiff
FILES
RAW_FILES
NEG
BPF_Neg.wiff
FILES
RAW_FILES
NEG
BPS_Neg.wiff
FILES
RAW_FILES
NEG
BioA-7G_Neg.wiff
FILES
RAW_FILES
NEG
BioA_Neg.wiff
FILES
RAW_FILES
NEG
BuP_Neg.wiff
FILES
RAW_FILES
NEG
CA-3G_Neg.wiff
FILES
RAW_FILES
NEG
CA-4G_Neg.wiff
FILES
RAW_FILES
NEG
CAT_Neg.wiff
FILES
RAW_FILES
NEG
CA_Neg.wiff
FILES
RAW_FILES
NEG
CDCA-3G_Neg.wiff
FILES
RAW_FILES
NEG
CDCA_Neg.wiff
FILES
RAW_FILES
NEG
CIBP_Neg.wiff
FILES
RAW_FILES
NEG
CUR-G_Neg.wiff
FILES
RAW_FILES
NEG
CUR-S_Neg.wiff
FILES
RAW_FILES
NEG
C_Neg.wiff
FILES
RAW_FILES
NEG
DAI-4G-7S_Neg.wiff
FILES
RAW_FILES
NEG
DAI-4G_Neg.wiff
FILES
RAW_FILES
NEG
DAI-4S_Neg.wiff
FILES
RAW_FILES
NEG
DAI-7G-4S_Neg.wiff
FILES
RAW_FILES
NEG
DAI-7G_Neg.wiff
FILES
RAW_FILES
NEG
DAI-diG_Neg.wiff
FILES
RAW_FILES
NEG
DAI_InitProduct_Neg.wiff
FILES
RAW_FILES
NEG
DCA_Neg.wiff
FILES
RAW_FILES
NEG
DCF_Neg.wiff
FILES
RAW_FILES
NEG
DEDTP_Neg.wiff
FILES
RAW_FILES
NEG
DEP_Neg.wiff
FILES
RAW_FILES
NEG
DETP_Neg.wiff
FILES
RAW_FILES
NEG
DHBAld_Neg.wiff
FILES
RAW_FILES
NEG
DHCA-3G_Neg.wiff
FILES
RAW_FILES
NEG
DHCA-3S_Neg.wiff
FILES
RAW_FILES
NEG
DHCA_Neg.wiff
FILES
RAW_FILES
NEG
DHEAS_Neg.wiff
FILES
RAW_FILES
NEG
DHFA-G_Neg.wiff
FILES
RAW_FILES
NEG
DHFA-S_Neg.wiff
FILES
RAW_FILES
NEG
DHFA_Neg.wiff
FILES
RAW_FILES
NEG
DHRSV_Neg.wiff
FILES
RAW_FILES
NEG
DHiFA-G_Neg.wiff
FILES
RAW_FILES
NEG
DHiFA-S_Neg.wiff
FILES
RAW_FILES
NEG
DHiFA_Neg.wiff
FILES
RAW_FILES
NEG
DMDTP_Neg.wiff
FILES
RAW_FILES
NEG
DMP_Neg.wiff
FILES
RAW_FILES
NEG
ECG_Neg.wiff
FILES
RAW_FILES
NEG
EC_Neg.wiff
FILES
RAW_FILES
NEG
ED_Neg.wiff
FILES
RAW_FILES
NEG
EGCG_Neg.wiff
FILES
RAW_FILES
NEG
EGC_Neg.wiff
FILES
RAW_FILES
NEG
EL-G_Neg.wiff
FILES
RAW_FILES
NEG
EL-S_Neg.wiff
FILES
RAW_FILES
NEG
EL_Neg.wiff
FILES
RAW_FILES
NEG
EQ-4S_Neg.wiff
FILES
RAW_FILES
NEG
EQ-7G_Neg.wiff
FILES
RAW_FILES
NEG
EQ_Neg.wiff
FILES
RAW_FILES
NEG
Et-G_Neg.wiff
FILES
RAW_FILES
NEG
Et-S_Neg.wiff
FILES
RAW_FILES
NEG
EtGA_Neg.wiff
FILES
RAW_FILES
NEG
EtP_Neg.wiff
FILES
RAW_FILES
NEG
FA-G_Neg.wiff
FILES
RAW_FILES
NEG
FA-S_Neg.wiff
FILES
RAW_FILES
NEG
FA_Neg.wiff
FILES
RAW_FILES
NEG
FOR-7G_Neg.wiff
FILES
RAW_FILES
NEG
FOR_Neg.wiff
FILES
RAW_FILES
NEG
GA-3G_Neg.wiff
FILES
RAW_FILES
NEG
GA-4G_Neg.wiff
FILES
RAW_FILES
NEG
GA_Neg.wiff
FILES
RAW_FILES
NEG
GCA_Neg.wiff
FILES
RAW_FILES
NEG
GCDCA-3G_Neg.wiff
FILES
RAW_FILES
NEG
GCDCA-3S_Neg.wiff
FILES
RAW_FILES
NEG
GCDCA_Neg.wiff
FILES
RAW_FILES
NEG
GDCA-3G_Neg.wiff
FILES
RAW_FILES
NEG
GDCA-3S_Neg.wiff
FILES
RAW_FILES
NEG
GDCA_Neg.wiff
FILES
RAW_FILES
NEG
GEN-4G-7S_Neg.wiff
FILES
RAW_FILES
NEG
GEN-4G_Neg.wiff
FILES
RAW_FILES
NEG
GEN-7G-4S_Neg.wiff
FILES
RAW_FILES
NEG
GEN-7G_Neg.wiff
FILES
RAW_FILES
NEG
GEN-7S_Neg.wiff
FILES
RAW_FILES
NEG
GEN-diG_Neg.wiff
FILES
RAW_FILES
NEG
GEN_Neg.wiff
FILES
RAW_FILES
NEG
GLCA-3S_Neg.wiff
FILES
RAW_FILES
NEG
GLCA_Neg.wiff
FILES
RAW_FILES
NEG
HA_Neg.wiff
FILES
RAW_FILES
NEG
HCTZ_Neg.wiff
FILES
RAW_FILES
NEG
HES-3_G_Neg.wiff
FILES
RAW_FILES
NEG
HES-7G_Neg.wiff
FILES
RAW_FILES
NEG
HES-7S_Neg.wiff
FILES
RAW_FILES
NEG
HES_Neg.wiff
FILES
RAW_FILES
NEG
HPYR-G_Neg.wiff
FILES
RAW_FILES
NEG
HTYR-3G_Neg.wiff
FILES
RAW_FILES
NEG
HTYR-3S_Neg.wiff
FILES
RAW_FILES
NEG
HTYR-4G_Neg.wiff
FILES
RAW_FILES
NEG
HTYR-4S_Neg.wiff
FILES
RAW_FILES
NEG
HTYR_Neg.wiff
FILES
RAW_FILES
NEG
HVA-S_Neg.wiff
FILES
RAW_FILES
NEG
HVA_Neg.wiff
FILES
RAW_FILES
NEG
HVAlc_Neg.wiff
FILES
RAW_FILES
NEG
IBP_Neg.wiff
FILES
RAW_FILES
NEG
IXH_Neg.wiff
FILES
RAW_FILES
NEG
K-3G_Neg.wiff
FILES
RAW_FILES
NEG
K_Neg.wiff
FILES
RAW_FILES
NEG
LCA_Neg.wiff
FILES
RAW_FILES
NEG
LUT-3G_Neg.wiff
FILES
RAW_FILES
NEG
LUT-7G_Neg.wiff
FILES
RAW_FILES
NEG
LUT_Neg.wiff
FILES
RAW_FILES
NEG
MASLINIC_Neg.wiff
FILES
RAW_FILES
NEG
MBuP_Neg.wiff
FILES
RAW_FILES
NEG
MBzP_Neg.wiff
FILES
RAW_FILES
NEG
MDA_Neg.wiff
FILES
RAW_FILES
NEG
MHPV_Neg.wiff
FILES
RAW_FILES
NEG
MMP_Neg.wiff
FILES
RAW_FILES
NEG
MPA_Neg.wiff
FILES
RAW_FILES
NEG
MTR_Neg.wiff
FILES
RAW_FILES
NEG
MeP_Neg.wiff
FILES
RAW_FILES
NEG
N-acetylglucosamine-6S_Neg.wiff
FILES
RAW_FILES
NEG
N-acetylneuraminic_Neg.wiff
FILES
RAW_FILES
NEG
NAR-7G_Neg.wiff
FILES
RAW_FILES
NEG
NAR_Neg.wiff
FILES
RAW_FILES
NEG
OLEANOLIC_Neg.wiff
FILES
RAW_FILES
NEG
PAA_Neg.wiff
FILES
RAW_FILES
NEG
PFDA_Neg.wiff
FILES
RAW_FILES
NEG
PFNA_Neg.wiff
FILES
RAW_FILES
NEG
PFOA_Neg.wiff
FILES
RAW_FILES
NEG
PFOS_Neg.wiff
FILES
RAW_FILES
NEG
PFUA_Neg.wiff
FILES
RAW_FILES
NEG
PHL_Neg.wiff
FILES
RAW_FILES
NEG
PICEID_Neg.wiff
FILES
RAW_FILES
NEG
PPA_Neg.wiff
FILES
RAW_FILES
NEG
PYR_Neg.wiff
FILES
RAW_FILES
NEG
PrP_Neg.wiff
FILES
RAW_FILES
NEG
ProB2_Neg.wiff
FILES
RAW_FILES
NEG
Q-3G_Neg.wiff
FILES
RAW_FILES
NEG
Q-3_G_Neg.wiff
FILES
RAW_FILES
NEG
Q-3_S_Neg.wiff
FILES
RAW_FILES
NEG
Q_Neg.wiff
FILES
RAW_FILES
NEG
SECO_Neg.wiff
FILES
RAW_FILES
NEG
SIN_Neg.wiff
FILES
RAW_FILES
NEG
SYR_Neg.wiff
FILES
RAW_FILES
NEG
TAX_Neg.wiff
FILES
RAW_FILES
NEG
TCA_Neg.wiff
FILES
RAW_FILES
NEG
TCC_Neg.wiff
FILES
RAW_FILES
NEG
TCDCA_Neg.wiff
FILES
RAW_FILES
NEG
TCPy_Neg.wiff
FILES
RAW_FILES
NEG
TCS_Neg.wiff
FILES
RAW_FILES
NEG
TDCA_Neg.wiff
FILES
RAW_FILES
NEG
THBAld_Neg.wiff
FILES
RAW_FILES
NEG
THPV_Neg.wiff
FILES
RAW_FILES
NEG
TLCA-3S_Neg.wiff
FILES
RAW_FILES
NEG
TLCA_Neg.wiff
FILES
RAW_FILES
NEG
TYR-G_Neg.wiff
FILES
RAW_FILES
NEG
TYR-S_Neg.wiff
FILES
RAW_FILES
NEG
TYR_Neg.wiff
FILES
RAW_FILES
NEG
UMB-G_Neg.wiff
FILES
RAW_FILES
NEG
UMB-S_Neg.wiff
FILES
RAW_FILES
NEG
UroA_Neg.wiff
FILES
RAW_FILES
NEG
UroB_Neg.wiff
FILES
RAW_FILES
NEG
UroC_Neg.wiff
FILES
RAW_FILES
NEG
VAN_Neg.wiff
FILES
RAW_FILES
NEG
VA_Neg.wiff
FILES
RAW_FILES
NEG
a-ketoglutaric_Neg.wiff
FILES
RAW_FILES
NEG
acesulfame_Neg.wiff
FILES
RAW_FILES
NEG
acetoacetic_Neg.wiff
FILES
RAW_FILES
NEG
adipic_Neg.wiff
FILES
RAW_FILES
NEG
arachidonic_Neg.wiff
FILES
RAW_FILES
NEG
ascorbic_Neg.wiff
FILES
RAW_FILES
NEG
azelaic_Neg.wiff
FILES
RAW_FILES
NEG
cRSV-3G_Neg.wiff
FILES
RAW_FILES
NEG
cRSV-4G_Neg.wiff
FILES
RAW_FILES
NEG
cRSV_Neg.wiff
FILES
RAW_FILES
NEG
cholesterol 3-sulfate_Neg.wiff
FILES
RAW_FILES
NEG
cholic_Neg.wiff
FILES
RAW_FILES
NEG
cis-aconitic_Neg.wiff
FILES
RAW_FILES
NEG
citramalic_Neg.wiff
FILES
RAW_FILES
NEG
citric_Neg.wiff
FILES
RAW_FILES
NEG
cyclamate_Neg.wiff
FILES
RAW_FILES
NEG
dehydroascorbic_Neg.wiff
FILES
RAW_FILES
NEG
docosahexaenoic _Neg.wiff
FILES
RAW_FILES
NEG
docosapentaenoic_Neg.wiff
FILES
RAW_FILES
NEG
docosatetraenoic _Neg.wiff
FILES
RAW_FILES
NEG
dodecanedioic_Neg.wiff
FILES
RAW_FILES
NEG
eicosapentaenoic_Neg.wiff
FILES
RAW_FILES
NEG
epicatechin 13C3_Neg.wiff
FILES
RAW_FILES
NEG
estrone-3-sulfate_Neg.wiff
FILES
RAW_FILES
NEG
ferulic 13C3_Neg.wiff
FILES
RAW_FILES
NEG
fumaric_Neg.wiff
FILES
RAW_FILES
NEG
galacturonic_Neg.wiff
FILES
RAW_FILES
NEG
gluconic_Neg.wiff
FILES
RAW_FILES
NEG
glucosamine 6-sulfate_Neg.wiff
FILES
RAW_FILES
NEG
glucose d2_Neg.wiff
FILES
RAW_FILES
NEG
glucose-6P_Neg.wiff
FILES
RAW_FILES
NEG
glucose_Neg.wiff
FILES
RAW_FILES
NEG
glutaric_Neg.wiff
FILES
RAW_FILES
NEG
glyceraldehyde-3P_Neg.wiff
FILES
RAW_FILES
NEG
glyceric 3-phosphate_Neg.wiff
FILES
RAW_FILES
NEG
glyceric_Neg.wiff
FILES
RAW_FILES
NEG
glycerol 1-phosphate_Neg.wiff
FILES
RAW_FILES
NEG
glycocholic 13C_Neg.wiff
FILES
RAW_FILES
NEG
glycolic_Neg.wiff
FILES
RAW_FILES
NEG
glyoxylic_Neg.wiff
FILES
RAW_FILES
NEG
homogentisic_Neg.wiff
FILES
RAW_FILES
NEG
iFA-G_Neg.wiff
FILES
RAW_FILES
NEG
iFA-S_Neg.wiff
FILES
RAW_FILES
NEG
iFA_Neg.wiff
FILES
RAW_FILES
NEG
iR-3G_Neg.wiff
FILES
RAW_FILES
NEG
iR_Neg.wiff
FILES
RAW_FILES
NEG
iVA_Neg.wiff
FILES
RAW_FILES
NEG
indoxyl glucuronide_Neg.wiff
FILES
RAW_FILES
NEG
indoxyl sulfate_Neg.wiff
FILES
RAW_FILES
NEG
isocitric_Neg.wiff
FILES
RAW_FILES
NEG
itaconic_Neg.wiff
FILES
RAW_FILES
NEG
lactic_Neg.wiff
FILES
RAW_FILES
NEG
linoleic_Neg.wiff
FILES
RAW_FILES
NEG
linolenic_Neg.wiff
FILES
RAW_FILES
NEG
lipoic_Neg.wiff
FILES
RAW_FILES
NEG
mCOU_Neg.wiff
FILES
RAW_FILES
NEG
malic_Neg.wiff
FILES
RAW_FILES
NEG
malonic_Neg.wiff
FILES
RAW_FILES
NEG
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orotic_Neg.wiff
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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urea_Pos.wiff
FILES
RAW_FILES
POS
uridine_Pos.wiff
FILES
RAW_FILES
POS
valeryl-carnitine_Pos.wiff
FILES
RAW_FILES
POS
valine betaine_Pos.wiff
FILES
RAW_FILES
POS
valine_Pos.wiff
FILES
RAW_FILES
POS
xanthine_Pos.wiff
FILES
RAW_FILES
POS
xanthosine_Pos.wiff
FILES
RAW_FILES
POS
xanthurenic_Pos.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
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IGNORED:  Samples_Sample Name
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 670
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1918
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
LC-MS_negative
IP31-Sample042negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP32-Sample043negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP33-Sample044negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP34-Sample045negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP35-Sample046negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP36-Sample047negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP37-Sample050negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP38-Sample051negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP39-Sample052negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP40-Sample053negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP41-Sample054negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
IP42-Sample055negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
QC1-Sample002negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
QC2-Sample003negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
QC3-Sample018negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
QC4-Sample033negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
QC5-Sample048negtive.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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 16%|█▌        | 262/1674 [31:54<2:34:57,  6.58s/it]
FILES
DERIVED_FILES
LC-MS_negative
QC6-Sample056negtive.mzML
FILES
DERIVED_FILES
LC-MS_negative
QC7-Sample057negtive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP31-Sample099postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP32-Sample100postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP33-Sample101postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP34-Sample102postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP35-Sample103postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP36-Sample104postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP37-Sample107postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP38-Sample108postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP39-Sample109postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP40-Sample110postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP41-Sample111postive.mzML
FILES
DERIVED_FILES
LC-MS_positive
IP42-Sample112postive.mzML
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DERIVED_FILES
LC-MS_positive
QC1-Sample059positive.mzML
FILES
DERIVED_FILES
LC-MS_positive
QC2-Sample060positive.mzML
FILES
DERIVED_FILES
LC-MS_positive
QC3-Sample075positive.mzML
FILES
DERIVED_FILES
LC-MS_positive
QC4-Sample090positive.mzML
FILES
DERIVED_FILES
LC-MS_positive
QC5-Sample105positive.mzML
FILES
DERIVED_FILES
LC-MS_positive
QC6-Sample113positive.mzML
FILES
DERIVED_FILES
LC-MS_positive
QC7-Sample114positive.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Collection time point post infection
IGNORED:  Samples_Term Source REF.3
IGNORED:  keep
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Weight change post infection
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_variant
IGNORED:  Assay_Data Transformation Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1919
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1925
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 6545 Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
pos_Blank7.mzML
FILES
DERIVED_FILES
pos_Pooled_1.mzML
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DERIVED_FILES
pos_Pooled_2.mzML
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DERIVED_FILES
pos_Pooled_3.mzML
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DERIVED_FILES
pos_Pooled_4.mzML
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DERIVED_FILES
pos_Pooled_5.mzML
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DERIVED_FILES
pos_Pooled_6.mzML
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DERIVED_FILES
pos_Sample_22A10-A_1.mzML
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DERIVED_FILES
pos_Sample_22A10-A_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-A_3.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-B_1.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-B_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-B_3.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-C_1.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-C_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-C_3.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-D_1.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-D_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-D_3.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-E_1.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-E_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A10-E_3.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-A_1.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-A_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-A_3.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-B_1.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-B_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-B_3.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-C_1.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-C_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-C_3.mzML
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DERIVED_FILES
pos_Sample_22A15-D_1.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-D_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-D_3.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-E_1.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-E_2.mzML
FILES
DERIVED_FILES
pos_Sample_22A15-E_3.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-A_1.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-A_2.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-A_3.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-B_1.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-B_2.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-B_3.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-C_1.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-C_2.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-C_3.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-D_1.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-D_2.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-D_3.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-E_1.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-E_2.mzML
FILES
DERIVED_FILES
pos_Sample_Vector-E_3.mzML
FILES
DERIVED_FILES
pos_Sample_blank-A_1.mzML
FILES
DERIVED_FILES
pos_Sample_blank-A_2.mzML
FILES
DERIVED_FILES
pos_Sample_blank-A_3.mzML
FILES
DERIVED_FILES
pos_Sample_blank-B_1.mzML
FILES
DERIVED_FILES
pos_Sample_blank-B_2.mzML
FILES
DERIVED_FILES
pos_Sample_blank-B_3.mzML
FILES
DERIVED_FILES
pos_Sample_blank-C_1.mzML
FILES
DERIVED_FILES
pos_Sample_blank-C_2.mzML
FILES
DERIVED_FILES
pos_Sample_blank-C_3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 16%|█▌        | 263/1674 [32:01<2:33:57,  6.55s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Gene overexpression (OE)
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 61 rows!
Added 61 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1932
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Acylcarnitine_ST_1.raw
FILES
Acylcarnitine_ST_2.raw
FILES
Blank.raw
FILES
Liver_QC_High-DDA.raw
FILES
Liver_QC_Low-DDA.raw
FILES
Liver_QC_Medium-DDA.raw
FILES
Liver_QC_PRM-1.raw
FILES
Liver_QC_PRM-10.raw
FILES
Liver_QC_PRM-11.raw
FILES
Liver_QC_PRM-12.raw
FILES
Liver_QC_PRM-13.raw
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Liver_QC_PRM-14.raw
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Liver_QC_PRM-15.raw
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Liver_QC_PRM-2.raw
FILES
Liver_QC_PRM-3.raw
FILES
Liver_QC_PRM-4.raw
FILES
Liver_QC_PRM-5.raw
FILES
Liver_QC_PRM-6.raw
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Liver_QC_PRM-7.raw
FILES
Liver_QC_PRM-8.raw
FILES
Liver_QC_PRM-9.raw
FILES
Liver_hydrophilic_DDMS.raw
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Liver_hydrophilic_DIA.raw
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Liver_hydrophilic_TDA_1.raw
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Liver_hydrophilic_TDA_2.raw
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Liver_hydrophobic_TDA_1.raw
FILES
Liver_hydrophobic_TDA_2.raw
FILES
Liver_hydrophobic_TDA_3.raw
FILES
Liver_lipid_hydrophobic_DIA.raw
FILES
NIST1950_hydrophilic_DDMS1.raw
FILES
NIST1950_hydrophilic_DDMS2.raw
FILES
NIST1950_hydrophilic_DIA.raw
FILES
NIST1950_hydrophilic_TDA1.raw
FILES
NIST1950_hydrophilic_TDA2.raw
FILES
NIST1950_hydrophobic_DDMS1.raw
FILES
NIST1950_hydrophobic_DDMS2.raw
FILES
NIST1950_hydrophobic_DIA.raw
FILES
NIST1950_hydrophobic_TDA1.raw
FILES
NIST1950_hydrophobic_TDA2.raw
FILES
Serum_QC_PRM-1.raw
FILES
Serum_QC_PRM-2.raw
FILES
Serum_QC_PRM-3.raw
FILES
Serum_QC_PRM-4.raw
FILES
Serum_QC_PRM-5.raw
FILES
Serum_QC_PRM-6.raw
FILES
Serum_QC_PRM-7.raw
FILES
Serum_QC_PRM-8.raw
FILES
Serum_QC_PRM-9.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Data Acquisition Method
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_Sample extract
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 47 rows!
Added 47 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1935
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS194
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS183
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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22_2_Glutamate.CDF
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80_07_Glutamate.CDF
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Cold_01_Glutamate.CDF
IGNORED:  Samples_Tracer
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 16%|█▌        | 267/1674 [32:33<3:26:41,  8.81s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 16%|█▌        | 268/1674 [32:39<3:06:06,  7.94s/it]
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Glutamine
IGNORED:  Samples_Oligomycin
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 417 rows!
Added 417 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1952
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
FILES
Lipid Mediators Panel A+B (Mutch, Bazinet, Leo) Re-inject  08MAY2015-Bazinet.wiff
FILES
Lipid Mediators Panel A+B (Mutch, Bazinet, Leo) Re-inject  08MAY2015-Curve.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Diet
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1955
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1956
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Waters SYNAPT G2 HDMS System: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
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  nan: missing value
FILES
RAW_FILES
AV_CK_C8_CK62-10_p_20230309_22.CDF
FILES
RAW_FILES
AV_CK_C8_CK62-13_p_20230309_23.CDF
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AV_CK_C8_CK62-14_p_20230309_28.CDF
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AV_CK_C8_CK62-15_p_20230309_31.CDF
FILES
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AV_CK_C8_CK62-2_p_20230309_20.CDF
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AV_CK_C8_CK62-3_p_20230309_24.CDF
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AV_CK_C8_CK62-4_p_20230309_29.CDF
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AV_CK_C8_CK62-6_p_20230309_21.CDF
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AV_CK_C8_CK62-7_p_20230309_26.CDF
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FILES
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AV_CK_C8_CK62-9_p_20230309_18.CDF
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AV_CK_C8_ExtBlk_p_20230309_12.CDF
IGNORED:  Samples_Term Source REF.8
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IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Biological replicate
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IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 16%|█▌        | 270/1674 [32:47<2:19:32,  5.96s/it]
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Cell count
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS196
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos ETD: missing value
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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SysVirol_IFT001_1918_d8_277_lipid_Neg_Gimli_19Sep13_13-07-01.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Samples_Term Source REF.5
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Number of rows removed due to not enough metadata: 0
Returning 168 rows!
Added 168 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1960
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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UBERONBodyPartName:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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LCMS_Thermo
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Cultivar or CSSL#
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 319 rows!
Added 319 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1963
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6520 Q-TOF: missing value
  Agilent 6550 iFunnel Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
M_xanthyloides_1A_run2.d
FILES
Mx+AFVVPPRIS.d
FILES
Mx+GTVAVQFL.d
FILES
Mx+evolidine-V5.d
FILES
cyclo-AFVVPPRIS.d
FILES
cyclo-GTVAVQFL.d
FILES
evolidine-200-dil.d
FILES
evolidine.d
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Sample provenance
IGNORED:  Assay_Mass analyzer
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IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 3
Returning 5 rows!
Added 5 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1964
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker compact: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
M_1_Tvox.mzML
FILES
M_1_Vir.mzML
FILES
M_1_WT.mzML
FILES
M_2_Tvox.mzML
FILES
M_2_Vir.mzML
FILES
M_2_WT.mzML
FILES
M_3_Tvox.mzML
FILES
M_3_Vir.mzML
FILES
M_3_WT.mzML
FILES
M_4_Tvox.mzML
FILES
M_4_Vir.mzML
FILES
M_4_WT.mzML
FILES
M_5_Tvox.mzML
FILES
M_5_Vir.mzML
FILES
M_5_WT.mzML
FILES
M_6_Tvox.mzML
FILES
M_6_Vir.mzML
FILES
M_6_WT.mzML
FILES
M_7_Tvox.mzML
FILES
M_7_Vir.mzML
FILES
M_7_WT.mzML
FILES
M_8_Tvox.mzML
FILES
M_8_Vir.mzML
FILES
M_8_WT.mzML
FILES
M_9_Tvox.mzML
FILES
M_9_Vir.mzML
FILES
M_9_WT.mzML
FILES
R_10_C.mzML
FILES
R_10_Tvox.mzML
FILES
R_10_Vir.mzML
FILES
R_10_WT.mzML
FILES
R_1_C.mzML
FILES
R_1_Tvox.mzML
FILES
R_1_Vir.mzML
FILES
R_1_WT.mzML
FILES
R_2_C.mzML
FILES
R_2_Tvox.mzML
FILES
R_2_Vir.mzML
FILES
R_2_WT.mzML
FILES
R_3_C.mzML
FILES
R_3_Tvox.mzML
FILES
R_3_Vir.mzML
FILES
R_3_WT.mzML
FILES
R_4_C.mzML
FILES
R_4_Tvox.mzML
FILES
R_4_Vir.mzML
FILES
R_4_WT.mzML
FILES
R_5_C.mzML
FILES
R_5_Tvox.mzML
FILES
R_5_Vir.mzML
FILES
R_5_WT.mzML
FILES
R_6_C.mzML
FILES
R_6_Tvox.mzML
FILES
R_6_Vir.mzML
FILES
R_6_WT.mzML
FILES
R_7_C.mzML
FILES
R_7_Tvox.mzML
FILES
R_7_Vir.mzML
FILES
R_7_WT.mzML
FILES
R_8_C.mzML
FILES
R_8_Tvox.mzML
FILES
R_8_Vir.mzML
FILES
R_8_WT.mzML
FILES
R_9_C.mzML
FILES
R_9_Tvox.mzML
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R_9_Vir.mzML
FILES
R_9_WT.mzML
FILES
S_1_Tvox.mzML
FILES
S_1_Vir.mzML
FILES
S_1_WT.mzML
FILES
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FILES
S_2_Vir.mzML
FILES
S_2_WT.mzML
FILES
S_3_Tvox.mzML
FILES
S_3_Vir.mzML
FILES
S_3_WT.mzML
FILES
S_4_Tvox.mzML
FILES
S_4_Vir.mzML
FILES
S_4_WT.mzML
FILES
S_5_Tvox.mzML
FILES
S_5_Vir.mzML
FILES
S_5_WT.mzML
FILES
S_6_Tvox.mzML
FILES
S_6_Vir.mzML
FILES
S_6_WT.mzML
FILES
S_7_Tvox.mzML
FILES
S_7_Vir.mzML
FILES
S_7_WT.mzML
FILES
S_8_Tvox.mzML
FILES
S_8_Vir.mzML
FILES
S_8_WT.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 91 rows!
Added 91 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1967
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6545 Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZ_prep_001.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZ_prep_002.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZ_prep_003.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZ_prep_005.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_002.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_003.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_004.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_005.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_024.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_025.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_027.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_030.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_032.mzML
FILES
0315.19 Organel_AGI_Lyso_Golg_HilZn_033.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_002.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_003.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_005.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_008.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_010.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_011.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_014.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_015.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_017.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_020.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_022.mzML
FILES
0423.19 Organel_AGI_ER_HilZ_neg_1B_023.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Samples_Variant
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Technical replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 16%|█▋        | 275/1674 [33:24<2:41:41,  6.93s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 16%|█▋        | 276/1674 [33:28<2:23:36,  6.16s/it]IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1969
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX API 2000: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
ExosomesKO1.mzXML
FILES
ExosomesKO2.mzXML
FILES
ExosomesWT1.mzXML
FILES
ExosomesWT2.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 4 rows!
Added 4 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS197
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Discovery: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
Bladder-ABCC5-1.RAW
FILES
Bladder-ABCC5-2.RAW
FILES
Bladder-ABCC5-3.RAW
FILES
Bladder-ABCC5-4.RAW
FILES
Bladder-ABCC5-5.RAW
FILES
Bladder-WT-1.RAW
FILES
Bladder-WT-2.RAW
FILES
Bladder-WT-3.RAW
FILES
Bladder-WT-4.RAW
FILES
Bladder-WT-5.RAW
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Brain-ABCC5-1.RAW
FILES
Brain-ABCC5-2.RAW
FILES
Brain-ABCC5-3.RAW
FILES
Brain-ABCC5-4.RAW
FILES
Brain-ABCC5-5.RAW
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Brain-WT-1.RAW
FILES
Brain-WT-2.RAW
FILES
Brain-WT-3.RAW
FILES
Brain-WT-4.RAW
FILES
Brain-WT-5.RAW
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Erythrocytes-ABCC5-1.raw
FILES
Erythrocytes-ABCC5-2.raw
FILES
Erythrocytes-ABCC5-3.raw
FILES
Erythrocytes-ABCC5-4.raw
FILES
Erythrocytes-ABCC5-5.raw
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Erythrocytes-WT-1.raw
FILES
Erythrocytes-WT-2.raw
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Erythrocytes-WT-3.raw
FILES
Erythrocytes-WT-4.raw
FILES
Erythrocytes-WT-5.raw
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Heart-ABCC5-1.RAW
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Heart-ABCC5-2.RAW
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Heart-ABCC5-3.RAW
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Heart-ABCC5-4.RAW
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Heart-ABCC5-5.RAW
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Heart-WT-1.RAW
FILES
Heart-WT-2.RAW
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Heart-WT-3.RAW
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Heart-WT-4.RAW
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Heart-WT-5.RAW
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Kidney-ABCC5-1.RAW
FILES
Kidney-ABCC5-2.RAW
FILES
Kidney-ABCC5-3.RAW
FILES
Kidney-ABCC5-4.RAW
FILES
Kidney-ABCC5-5.RAW
FILES
Kidney-WT-1.RAW
FILES
Kidney-WT-2.RAW
FILES
Kidney-WT-3.RAW
FILES
Kidney-WT-4.RAW
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Kidney-WT-5.RAW
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Lens-ABCC5-1.RAW
FILES
Lens-ABCC5-2.RAW
FILES
Lens-ABCC5-3.RAW
FILES
Lens-ABCC5-4.RAW
FILES
Lens-ABCC5-5.RAW
FILES
Lens-WT-1.RAW
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Lens-WT-2.RAW
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Lens-WT-3.RAW
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Lens-WT-4.RAW
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Lens-WT-5.RAW
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Liver-ABCC5-1.RAW
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Liver-ABCC5-2.RAW
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Liver-ABCC5-3.RAW
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Liver-ABCC5-4.RAW
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Liver-ABCC5-5.RAW
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Liver-WT-1.RAW
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Liver-WT-2.RAW
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Liver-WT-3.RAW
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Liver-WT-4.RAW
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Liver-WT-5.RAW
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Lung-ABCC5-1.RAW
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Lung-ABCC5-2.RAW
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Lung-ABCC5-3.RAW
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Lung-ABCC5-4.RAW
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Lung-ABCC5-5.RAW
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Lung-WT-1.RAW
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Lung-WT-2.RAW
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Lung-WT-3.RAW
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Lung-WT-4.RAW
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Lung-WT-5.RAW
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Muscle-ABCC5-1.RAW
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Muscle-ABCC5-2.RAW
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Muscle-ABCC5-3.RAW
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Muscle-ABCC5-4.RAW
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Muscle-ABCC5-5.RAW
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Muscle-WT-1.RAW
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Muscle-WT-2.RAW
FILES
Muscle-WT-3.RAW
FILES
Muscle-WT-4.RAW
FILES
Muscle-WT-5.RAW
FILES
Plasma-ABCC5-1.raw
FILES
Plasma-ABCC5-2.raw
FILES
Plasma-ABCC5-3.raw
FILES
Plasma-ABCC5-4.raw
FILES
Plasma-ABCC5-5.raw
FILES
Plasma-WT-1.raw
FILES
Plasma-WT-2.raw
FILES
Plasma-WT-3.raw
FILES
Plasma-WT-4.raw
FILES
Plasma-WT-5.raw
FILES
Spleen-ABCC5-1.RAW
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Spleen-ABCC5-2.RAW
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Spleen-ABCC5-3.RAW
FILES
Spleen-ABCC5-4.RAW
FILES
Spleen-ABCC5-5.RAW
FILES
Spleen-WT-1.RAW
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Spleen-WT-2.RAW
FILES
Spleen-WT-3.RAW
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Spleen-WT-4.RAW
FILES
Spleen-WT-5.RAW
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Stomach-ABCC5-1.RAW
FILES
Stomach-ABCC5-2.RAW
FILES
Stomach-ABCC5-3.RAW
FILES
Stomach-ABCC5-4.RAW
FILES
Stomach-ABCC5-5.RAW
FILES
Stomach-WT-1.RAW
FILES
Stomach-WT-2.RAW
FILES
Stomach-WT-3.RAW
FILES
Stomach-WT-4.RAW
FILES
Stomach-WT-5.RAW
FILES
Testis-ABCC5-1.RAW
FILES
Testis-ABCC5-2.RAW
FILES
Testis-ABCC5-3.RAW
FILES
Testis-ABCC5-4.RAW
FILES
Testis-ABCC5-5.RAW
FILES
Testis-WT-1.RAW
FILES
Testis-WT-2.RAW
FILES
Testis-WT-3.RAW
FILES
Testis-WT-4.RAW
FILES
Testis-WT-5.RAW
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.5
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Is Fluid
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IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 17%|█▋        | 277/1674 [33:35<2:25:36,  6.25s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 17%|█▋        | 278/1674 [33:41<2:24:47,  6.22s/it]
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 130 rows!
Added 130 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1972
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
Blank.raw
FILES
RAW_FILES
Bligh Dyer 1 (BD).raw
FILES
RAW_FILES
Bligh Dyer 2 (BD).raw
FILES
RAW_FILES
Bligh Dyer 3 (BD).raw
FILES
RAW_FILES
Folch 1 (FO).raw
FILES
RAW_FILES
Folch 2 (FO).raw
FILES
RAW_FILES
Folch 3 (FO).raw
FILES
RAW_FILES
Immature 1 (IM).raw
FILES
RAW_FILES
Immature 2 (IM).raw
FILES
RAW_FILES
Immature 3 (IM).raw
FILES
RAW_FILES
Matyash 1 (MA).raw
FILES
RAW_FILES
Matyash 2 (MA).raw
FILES
RAW_FILES
Matyash 3 (MA).raw
FILES
RAW_FILES
Overripe  1 (OR).raw
FILES
RAW_FILES
Overripe 2 (OR).raw
FILES
RAW_FILES
Overripe 3 (OR).raw
FILES
RAW_FILES
Ripe peeled cherry 1 (RP).raw
FILES
RAW_FILES
Ripe peeled cherry 2 (RP).raw
FILES
RAW_FILES
Ripe peeled cherry 3 (RP).raw
FILES
RAW_FILES
Ripe pulped natural process 1 (PN).raw
FILES
RAW_FILES
Ripe pulped natural process 2 (PN).raw
FILES
RAW_FILES
Ripe pulped natural process 3 (PN).raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Extraction
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Maturation
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 22 rows!
Added 22 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1973
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6545 Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
0403.19 Organel_LGTER_CSH_neg_002.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_003.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_004.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_005.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_009.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_011.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_013.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_016.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_018.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_020.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_021.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_023.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_025.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_043.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_044.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_045.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_046.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_047.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_050.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_051.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_052.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_053.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_054.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_055.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_056.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_057.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_059.mzML
FILES
0403.19 Organel_LGTER_CSH_neg_060.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0001.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0002.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0009r.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0010.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0012.mzML
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Concentration
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Protocol REF
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 17%|█▋        | 279/1674 [33:48<2:28:17,  6.38s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 17%|█▋        | 280/1674 [33:56<2:40:33,  6.91s/it]
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Technical replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_Organelle
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_IDH1 gene
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 31 rows!
Added 31 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1974
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6545 Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
0403.19 Organel_LGTER_CSH_pos_002.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_003.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_004.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_005.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_009.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_011.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_013.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_016.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_018.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_020.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_021.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_023.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_025.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_043.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_044.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_045.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_046.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_047.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_050.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_051.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_052.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_053.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_054.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_055.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_056.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_057.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_059.mzML
FILES
0403.19 Organel_LGTER_CSH_pos_060.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0003.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0004.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0005.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0007.mzML
FILES
0403.19 Organel_LGTER_CSH_prep_0008.mzML
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Concentration
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Protocol REF
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Technical replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_Organelle
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_IDH1 gene
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 31 rows!
Added 31 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1977
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Elite: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
C18_BLANKA_1.raw
FILES
C18_BLANKA_2.raw
FILES
C18_BLANK_A.raw
FILES
C18_BLANK_B.raw
FILES
KO_0909_1.raw
FILES
KO_0909_2.raw
FILES
KO_0909_3.raw
FILES
KO_1304_1.raw
FILES
KO_1304_2.raw
FILES
KO_1304_3.raw
FILES
KO_1709_1.raw
FILES
KO_1709_2.raw
FILES
KO_1709_3.raw
FILES
WT_0909_1.raw
FILES
WT_0909_2.raw
FILES
WT_0909_3.raw
FILES
WT_1304_1.raw
FILES
WT_1304_2.raw
FILES
WT_1304_3.raw
FILES
WT_1709_1.raw
FILES
WT_1709_2.raw
FILES
WT_1709_3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_quantification
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 17%|█▋        | 281/1674 [34:01<2:29:37,  6.44s/it]
 17%|█▋        | 282/1674 [34:03<1:56:49,  5.04s/it]
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1978
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS198
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
JALI002_DietC_V1.mzXML
FILES
JALI002_DietC_V2.mzXML
FILES
JALI002_DietC_V3.mzXML
FILES
JALI002_DietC_V4.mzXML
FILES
JALI003_DietB_V1.mzXML
FILES
JALI003_DietB_V2.mzXML
FILES
JALI003_DietB_V3.mzXML
FILES
JALI003_DietB_V4.mzXML
FILES
JALI005_DietB_V1.mzXML
FILES
JALI005_DietB_V2.mzXML
FILES
JALI005_DietB_V3.mzXML
FILES
JALI005_DietB_V4.mzXML
FILES
JALI006_DietA_V1.mzXML
FILES
JALI006_DietA_V2.mzXML
FILES
JALI006_DietA_V3.mzXML
FILES
JALI006_DietA_V4.mzXML
FILES
JALI007_DietC_V1.mzXML
FILES
JALI007_DietC_V2.mzXML
FILES
JALI007_DietC_V3.mzXML
FILES
JALI007_DietC_V4.mzXML
FILES
JALI009_DietB_V1.mzXML
FILES
JALI009_DietB_V2.mzXML
FILES
JALI009_DietB_V3.mzXML
FILES
JALI009_DietB_V4.mzXML
FILES
JALI011_DietA_V1.mzXML
FILES
JALI011_DietA_V2.mzXML
FILES
JALI011_DietA_V3.mzXML
FILES
JALI011_DietA_V4.mzXML
FILES
JALI012_DietA_V1.mzXML
FILES
JALI012_DietA_V2.mzXML
FILES
JALI012_DietA_V3.mzXML
FILES
JALI012_DietA_V4.mzXML
FILES
JALI014_DietA_V1.mzXML
FILES
JALI014_DietA_V2.mzXML
FILES
JALI014_DietA_V3.mzXML
FILES
JALI014_DietA_V4.mzXML
FILES
JALI015_DietC_V1.mzXML
FILES
JALI015_DietC_V2.mzXML
FILES
JALI015_DietC_V3.mzXML
FILES
JALI015_DietC_V4.mzXML
FILES
JALI016_DietC_V1.mzXML
FILES
JALI016_DietC_V2.mzXML
FILES
JALI016_DietC_V3.mzXML
FILES
JALI016_DietC_V4.mzXML
FILES
JALI019_DietB_V1.mzXML
FILES
JALI019_DietB_V2.mzXML
FILES
JALI019_DietB_V3.mzXML
FILES
JALI019_DietB_V4.mzXML
FILES
JALI024_DietA_V1.mzXML
FILES
JALI024_DietA_V2.mzXML
FILES
JALI024_DietA_V3.mzXML
FILES
JALI024_DietA_V4.mzXML
FILES
JALI025_DietC_V1.mzXML
FILES
JALI025_DietC_V2.mzXML
FILES
JALI025_DietC_V3.mzXML
FILES
JALI025_DietC_V4.mzXML
FILES
JALI028_DietA_V1.mzXML
FILES
JALI028_DietA_V2.mzXML
FILES
JALI028_DietA_V3.mzXML
FILES
JALI028_DietA_V4.mzXML
FILES
JALI034_DietB_V1.mzXML
FILES
JALI034_DietB_V2.mzXML
FILES
JALI034_DietB_V3.mzXML
FILES
JALI034_DietB_V4.mzXML
FILES
JALI035_DietC_V1.mzXML
FILES
JALI035_DietC_V2.mzXML
FILES
JALI035_DietC_V3.mzXML
FILES
JALI035_DietC_V4.mzXML
FILES
JALI036_DietA_V1.mzXML
FILES
JALI036_DietA_V2.mzXML
FILES
JALI036_DietA_V3.mzXML
FILES
JALI036_DietA_V4.mzXML
FILES
JALI041_DietA_V1.mzXML
FILES
JALI041_DietA_V2.mzXML
FILES
JALI041_DietA_V3.mzXML
FILES
JALI041_DietA_V4.mzXML
FILES
JALI045_DietA_V1.mzXML
FILES
JALI045_DietA_V2.mzXML
FILES
JALI045_DietA_V3.mzXML
FILES
JALI045_DietA_V4.mzXML
FILES
JALI047_DietB_V1.mzXML
FILES
JALI047_DietB_V2.mzXML
FILES
JALI047_DietB_V3.mzXML
FILES
JALI047_DietB_V4.mzXML
FILES
JALI050_DietB_V1.mzXML
FILES
JALI050_DietB_V2.mzXML
FILES
JALI050_DietB_V3.mzXML
FILES
JALI050_DietB_V4.mzXML
FILES
JALI051_DietC_V1.mzXML
FILES
JALI051_DietC_V2.mzXML
FILES
JALI051_DietC_V3.mzXML
FILES
JALI051_DietC_V4.mzXML
FILES
JALI056_DietB_V1.mzXML
FILES
JALI056_DietB_V2.mzXML
FILES
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JALI296_DietA_V4.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
JALI303_DietA_V1.mzXML
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JALI303_DietA_V2.mzXML
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JALI303_DietA_V4.mzXML
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Number of rows removed due to not enough metadata: 0
Returning 508 rows!
Added 508 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1980
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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  Agilent 5975 MSD: missing value
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ENVOEnvironmentBiome:
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FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Marine Organism/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 17%|█▋        | 284/1674 [34:30<3:36:16,  9.34s/it]
 17%|█▋        | 285/1674 [34:32<2:42:43,  7.03s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 33
Returning 88 rows!
Added 88 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1357
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1983
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CamTPS1_NmTPS2.CDF
FILES
CamTPS2_ScSS.CDF
FILES
CamTPS3_NmTPS2.CDF
FILES
CamTPS6_CfTPS3.CDF
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NmTPS1_CfTPS3.CDF
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ShTPS1_ScSS.CDF
FILES
ZmAn2_NmTPS2.CDF
FILES
entkaurene_DXSGGPPScontrol.CDF
FILES
kolavelool_DXSGGPPScontrol.CDF
FILES
miltiradiene_DXSGGPPScontrol.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Enzyme pair
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 10 rows!
Added 10 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1987
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1990
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1991
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Method 1
QXA10POSEAR20180821_UPIT0318VW_HUMAN_SERUM1_03.mzML
FILES
Method 1
QXA10POSEAR20180821_UPIT0318VW_HUMAN_SERUM1_04.mzML
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Method 1
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Method 1
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Method 1
QXA10POSEAR20180821_UPIT0318VW_HUMAN_SERUM1_07.mzML
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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FILES
Method 1
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Method 1
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Method 1
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FILES
Method 1
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FILES
Method 1
QXA10POSEAR20180821_UPIT0318VW_HUMAN_SERUM1_30.mzML
FILES
Method 1
QXA10POSEAR20180821_UPIT0318VW_HUMAN_SERUM1_31.mzML
FILES
Method 1
QXA10POSEAR20180821_UPIT0318VW_HUMAN_SERUM1_33.mzML
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Method 4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.19
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Number of rows removed due to not enough metadata: 0
Returning 784 rows!
Added 784 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS200
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters GCT Premier: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
OMAIR_012811_01.CDF
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OMAIR_102010_DIL_17.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
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IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
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IGNORED:  Assay_Term Accession Number
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IGNORED:  Samples_Term Source REF.7
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IGNORED:  Samples_Term Source REF.10
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IGNORED:  Assay_Term Source REF.3
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IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
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IGNORED:  Samples_CA Type
Number of rows removed due to not enough metadata: 0
Returning 66 rows!
Added 66 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2007
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2014
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2015
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2016
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker maXis UHR-ToF: missing value
  Bruker timsTOF Pro: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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QC_total_2-B,3_01_6616.mzML
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DERIVED_FILES
QC_total_2-B,3_01_6628.mzML
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DERIVED_FILES
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DERIVED_FILES
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FILES
DERIVED_FILES
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DERIVED_FILES
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FILES
DERIVED_FILES
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DERIVED_FILES
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FILES
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DAF2-002 pos_95_01_7073.d
FILES
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DAF2-002 pos_95_01_7077.d
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RAW_FILES
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.6
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Number of rows removed due to not enough metadata: 0
Returning 168 rows!
Added 168 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2017
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 18%|█▊        | 295/1674 [35:42<2:11:16,  5.71s/it]
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Shimadzu GCMS-TQ8040: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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Farmflora
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Farmflora
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Farmflora
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Farmflora
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Farmflora
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Farmflora
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Farmflora
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Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
34_Farmflora_31052017_16.CDF
FILES
Farmflora
35_Farmflora_31052017_47.CDF
FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
53_Farmflora_31052017_25.CDF
FILES
Farmflora
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FILES
Farmflora
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Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
Farmflora
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Mother previously given birth?
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Autosampler model
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Number of rows removed due to not enough metadata: 0
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS204
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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FILES
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Accession Number.8
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Sample type
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IGNORED:  filepath
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IGNORED:  Assay_Label
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IGNORED:  Assay_Raw data file format
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Number of rows removed due to not enough metadata: 0
Returning 344 rows!
Added 344 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2040
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2042
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS205
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 448 rows!
Added 448 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2052
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2053
Request successful!
SampleCollectionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 18%|█▊        | 301/1674 [36:32<2:58:42,  7.81s/it]
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Shimadzu GCMS-QP2010 Ultra: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 33 rows!
Added 33 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS206
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_LENS_24.mzML
FILES
QXA15POSEAR20191001_JHOP0519VW_MOUSE_LENS_25.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_LENS_26.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_LENS_27.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_LENS_29.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_LENS_30.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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QXA15POSLAT20191001_JHOP0519VW_MOUSE_LENS_03.mzML
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QXA15POSLAT20191001_JHOP0519VW_MOUSE_LENS_18.mzML
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QXA15POSLAT20191001_JHOP0519VW_MOUSE_LENS_21.mzML
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QXA15POSLAT20191001_JHOP0519VW_MOUSE_LENS_32.mzML
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QXA15POSLAT20191001_JHOP0519VW_MOUSE_LENS_34.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
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IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 112 rows!
Added 112 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2060
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS207
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QXA08POL20191001_JHOP0519VW_MOUSE_CELLS_03.mzML
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QXA08POL20191001_JHOP0519VW_MOUSE_CELLS_04.mzML
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QXA08POL20191001_JHOP0519VW_MOUSE_CELLS_08.mzML
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QXA08POL20191001_JHOP0519VW_MOUSE_CELLS_09.mzML
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QXA08POL20191001_JHOP0519VW_MOUSE_CELLS_12.mzML
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QXA08POL20191001_JHOP0519VW_MOUSE_CELLS_13.mzML
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QXA14NEG20191001_JHOP0519VW_MOUSE_CELLS_03.mzML
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QXA14NEG20191001_JHOP0519VW_MOUSE_CELLS_04.mzML
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QXA14NEG20191001_JHOP0519VW_MOUSE_CELLS_06.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_CELLS_04.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_CELLS_06.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_CELLS_07.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_CELLS_08.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_CELLS_09.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_CELLS_12.mzML
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QXA15POSEAR20191001_JHOP0519VW_MOUSE_CELLS_13.mzML
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QXA15POSLAT20191001_JHOP0519VW_MOUSE_CELLS_03.mzML
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QXA15POSLAT20191001_JHOP0519VW_MOUSE_CELLS_06.mzML
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QXA15POSLAT20191001_JHOP0519VW_MOUSE_CELLS_07.mzML
FILES
QXA15POSLAT20191001_JHOP0519VW_MOUSE_CELLS_08.mzML
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QXA15POSLAT20191001_JHOP0519VW_MOUSE_CELLS_09.mzML
FILES
QXA15POSLAT20191001_JHOP0519VW_MOUSE_CELLS_12.mzML
FILES
QXA15POSLAT20191001_JHOP0519VW_MOUSE_CELLS_13.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
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Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2074
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2075
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2080
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 18%|█▊        | 307/1674 [37:01<1:46:08,  4.66s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 18%|█▊        | 308/1674 [37:07<1:57:23,  5.16s/it]
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Number of rows removed due to not enough metadata: 0
Returning 86 rows!
Added 86 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2081
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 68 rows!
Added 68 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2087
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
RAW_FILES
Sample8_2uL_neg_70K_ddMS2_Ex4_mz215_mz800_Inc_woRT_Exc_02.raw
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RAW_FILES
Sample8_2uL_neg_70K_ddMS2_Ex4_mz215_mz800_Inc_woRT_Exc_03.raw
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mix_1.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Time Point
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_CBM 588 Dose
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Treatment group
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Clindamycin Dose
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 1
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2088
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS209
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo TQ: missing value
  Waters SYNAPT HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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VAT_semi1.raw
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VCA_PHL_buccia2.raw
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VCA_PHL_buccia3.raw
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VCA_PHL_semi1.raw
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VCA_PHL_semi2.raw
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VCA_buccia1.raw
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VCI_PHL_buccia3.raw
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VCI_PHL_semi3.raw
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VCI_semi3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Is Fluid
IGNORED:  keep/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 19%|█▊        | 311/1674 [37:31<2:59:03,  7.88s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 19%|█▊        | 312/1674 [37:36<2:37:36,  6.94s/it]
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 458 rows!
Added 458 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2096
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Velos Pro: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
FG102036_20p-qb.mzXML
FILES
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FG102036_80p-qb.mzXML
FILES
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FG106078_20p-qb.mzXML
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DERIVED_FILES
FG106078_80p-qb.mzXML
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FG123531_80p-qb.mzXML
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FG124256_20p-qb.mzXML
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FG124266_80p-qb.mzXML
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DERIVED_FILES
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FG124518_20p-qb.mzXML
FILES
DERIVED_FILES
FG124518_80p-qb.mzXML
FILES
DERIVED_FILES
FG37347_20p-qb.mzXML
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DERIVED_FILES
FG37347_80p-qb.mzXML
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DERIVED_FILES
FG72983_20p-qb.mzXML
FILES
DERIVED_FILES
FG72983_80p-qb.mzXML
FILES
DERIVED_FILES
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DERIVED_FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Candidate effector
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IGNORED:  Assay_Term Accession Number
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IGNORED:  Assay_DI Instrument
IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 29 rows!
Added 29 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS210
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
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FILES
L_AM_1.cdf
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  filename_lower
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IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Data Transformation Name.2
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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 19%|█▊        | 313/1674 [37:42<2:30:59,  6.66s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 19%|█▉        | 314/1674 [37:52<2:50:29,  7.52s/it]
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 33 rows!
Added 33 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS20
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Discovery: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
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  nan: missing value
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FILES
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1024_1,3-Dimethyluric_acid_NEG.mzML
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391_3-Hydroxy-4-methoxycinnamic_acid_NEG.mzML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Material sample
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 76
Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2104
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX API 4000: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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KIT2-0-5404_1026495727_06_0_1_1_00_1026498850.wiff/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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KIT2-0-5404_1026495727_39_0_1_1_00_1026495799.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_40_0_1_1_00_1026495871.wiff
FILES
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LC-MS
KIT2-0-5404_1026495727_41_0_1_1_00_1026498807.wiff
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LC-MS
KIT2-0-5404_1026495727_42_0_1_1_00_1026498883.wiff
FILES
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LC-MS
KIT2-0-5404_1026495727_43_0_1_1_00_1026502004.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_50_0_1_1_04_1020158020.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_51_0_1_1_00_1026495800.wiff
FILES
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LC-MS
KIT2-0-5404_1026495727_52_0_1_1_00_1026495886.wiff
FILES
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KIT2-0-5404_1026495727_53_0_1_1_00_1026498811.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_54_0_1_1_00_1026498898.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_55_0_1_1_00_1026502019.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_62_0_1_1_05_1020158034.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_63_0_1_1_00_1026495814.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_64_0_1_1_00_1026498743.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_65_0_1_1_00_1026498826.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_66_0_1_1_00_1026498909.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_67_0_1_1_00_1026502023.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_74_0_1_1_00_1026495746.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_75_0_1_1_00_1026495829.wiff
FILES
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LC-MS
KIT2-0-5404_1026495727_76_0_1_1_00_1026498758.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_77_0_1_1_00_1026498831.wiff
FILES
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LC-MS
KIT2-0-5404_1026495727_78_0_1_1_00_1026498913.wiff
FILES
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LC-MS
KIT2-0-5404_1026495727_79_0_1_1_00_1026502038.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_86_0_1_1_00_1026495751.wiff
FILES
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LC-MS
KIT2-0-5404_1026495727_87_0_1_1_00_1026495833.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_88_0_1_1_00_1026498762.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_89_0_1_1_00_1026498845.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_90_0_1_1_00_1026498928.wiff
FILES
RAW_FILES
LC-MS
KIT2-0-5404_1026495727_96_0_1_1_00_1026495954.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_FIA Instrument
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Group
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 15
Returning 128 rows!
Added 128 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2105
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Orbitrap ID-X Tribrid: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
ATCC_29213_neg
x19113x134.mzML
FILES
ATCC_29213_neg
x19113x169.mzML
FILES
ATCC_29213_neg
x19113x204.mzML
FILES
ATCC_29213_neg
x19113x239.mzML
FILES
ATCC_29213_neg
x19113x28.mzML
FILES
ATCC_29213_neg
x19113x63.mzML
FILES
ATCC_29213_neg
x19113x99.mzML
FILES
ATCC_29213_pos
x19113x133.mzML
FILES
ATCC_29213_pos
x19113x168.mzML
FILES
ATCC_29213_pos
x19113x203.mzML
FILES
ATCC_29213_pos
x19113x238.mzML
FILES
ATCC_29213_pos
x19113x27.mzML
FILES
ATCC_29213_pos
x19113x62.mzML
FILES
ATCC_29213_pos
x19113x98.mzML
FILES
CDC_ID_234_neg
x19113x128.mzML
FILES
CDC_ID_234_neg
x19113x163.mzML
FILES
CDC_ID_234_neg
x19113x198.mzML
FILES
CDC_ID_234_neg
x19113x22.mzML
FILES
CDC_ID_234_neg
x19113x233_20191115131740.mzML
FILES
CDC_ID_234_neg
x19113x57.mzML
FILES
CDC_ID_234_neg
x19113x93.mzML
FILES
CDC_ID_234_pos
x19113x127.mzML
FILES
CDC_ID_234_pos
x19113x162.mzML
FILES
CDC_ID_234_pos
x19113x197.mzML
FILES
CDC_ID_234_pos
x19113x21.mzML
FILES
CDC_ID_234_pos
x19113x232.mzML
FILES
CDC_ID_234_pos
x19113x56.mzML
FILES
CDC_ID_234_pos
x19113x92.mzML
FILES
CDC_ID_249_neg
x19113x131.mzML
FILES
CDC_ID_249_neg
x19113x166.mzML
FILES
CDC_ID_249_neg
x19113x201.mzML
FILES
CDC_ID_249_neg
x19113x236.mzML
FILES
CDC_ID_249_neg
x19113x25.mzML
FILES
CDC_ID_249_neg
x19113x60.mzML
FILES
CDC_ID_249_neg
x19113x96.mzML
FILES
CDC_ID_249_pos
x19113x130.mzML
FILES
CDC_ID_249_pos
x19113x165.mzML
FILES
CDC_ID_249_pos
x19113x200.mzML
FILES
CDC_ID_249_pos
x19113x235.mzML
FILES
CDC_ID_249_pos
x19113x24.mzML
FILES
CDC_ID_249_pos
x19113x59.mzML
FILES
CDC_ID_249_pos
x19113x95.mzML
FILES
CDC_ID_258_neg
x19113x125.mzML
FILES
CDC_ID_258_neg
x19113x160.mzML
FILES
CDC_ID_258_neg
x19113x19.mzML
FILES
CDC_ID_258_neg
x19113x195.mzML
FILES
CDC_ID_258_neg
x19113x230.mzML
FILES
CDC_ID_258_neg
x19113x54.mzML
FILES
CDC_ID_258_neg
x19113x90.mzML
FILES
CDC_ID_258_pos
x19113x124.mzML
FILES
CDC_ID_258_pos
x19113x159.mzML
FILES
CDC_ID_258_pos
x19113x18.mzML
FILES
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 19%|█▉        | 316/1674 [38:12<3:19:49,  8.83s/it]
 19%|█▉        | 317/1674 [38:13<2:31:01,  6.68s/it]
 19%|█▉        | 318/1674 [38:15<1:58:59,  5.27s/it]CDC_ID_258_pos
x19113x194.mzML
FILES
CDC_ID_258_pos
x19113x229.mzML
FILES
CDC_ID_258_pos
x19113x53.mzML
FILES
CDC_ID_258_pos
x19113x89.mzML
FILES
CDC_ID_474_neg
x19113x108.mzML
FILES
CDC_ID_474_neg
x19113x143.mzML
FILES
CDC_ID_474_neg
x19113x178.mzML
FILES
CDC_ID_474_neg
x19113x213.mzML
FILES
CDC_ID_474_neg
x19113x248.mzML
FILES
CDC_ID_474_neg
x19113x37.mzML
FILES
CDC_ID_474_neg
x19113x72.mzML
FILES
CDC_ID_474_pos
x19113x107.mzML
FILES
CDC_ID_474_pos
x19113x142.mzML
FILES
CDC_ID_474_pos
x19113x177.mzML
FILES
CDC_ID_474_pos
x19113x212.mzML
FILES
CDC_ID_474_pos
x19113x247.mzML
FILES
CDC_ID_474_pos
x19113x36.mzML
FILES
CDC_ID_474_pos
x19113x71.mzML
FILES
CDC_ID_484_neg
x19113x105.mzML
FILES
CDC_ID_484_neg
x19113x140.mzML
FILES
CDC_ID_484_neg
x19113x175.mzML
FILES
CDC_ID_484_neg
x19113x210.mzML
FILES
CDC_ID_484_neg
x19113x245.mzML
FILES
CDC_ID_484_neg
x19113x34.mzML
FILES
CDC_ID_484_neg
x19113x69.mzML
FILES
CDC_ID_484_pos
x19113x104.mzML
FILES
CDC_ID_484_pos
x19113x139.mzML
FILES
CDC_ID_484_pos
x19113x174.mzML
FILES
CDC_ID_484_pos
x19113x209.mzML
FILES
CDC_ID_484_pos
x19113x244.mzML
FILES
CDC_ID_484_pos
x19113x33.mzML
FILES
CDC_ID_484_pos
x19113x68.mzML
FILES
Isogenic_neg
x19113x119.mzML
FILES
Isogenic_neg
x19113x13.mzML
FILES
Isogenic_neg
x19113x154.mzML
FILES
Isogenic_neg
x19113x189.mzML
FILES
Isogenic_neg
x19113x224.mzML
FILES
Isogenic_neg
x19113x48.mzML
FILES
Isogenic_neg
x19113x84.mzML
FILES
Pooled_QC_neg
x19113x111.mzML
FILES
Pooled_QC_neg
x19113x113.mzML
FILES
Pooled_QC_neg
x19113x146.mzML
FILES
Pooled_QC_neg
x19113x148.mzML
FILES
Pooled_QC_neg
x19113x181.mzML
FILES
Pooled_QC_neg
x19113x183.mzML
FILES
Pooled_QC_neg
x19113x216.mzML
FILES
Pooled_QC_neg
x19113x218.mzML
FILES
Pooled_QC_neg
x19113x251.mzML
FILES
Pooled_QC_neg
x19113x253.mzML
FILES
Pooled_QC_neg
x19113x40.mzML
FILES
Pooled_QC_neg
x19113x42.mzML
FILES
Pooled_QC_neg
x19113x75.mzML
FILES
SCFM_cont_pos
x19113x115.mzML
FILES
SCFM_cont_pos
x19113x150.mzML
FILES
SCFM_cont_pos
x19113x185.mzML
FILES
SCFM_cont_pos
x19113x220.mzML
FILES
SCFM_cont_pos
x19113x44.mzML
FILES
SCFM_cont_pos
x19113x80.mzML
FILES
SCFM_cont_pos
x19113x9.mzML
FILES
SCFM_control_neg
x19113x10.mzML
FILES
SCFM_control_neg
x19113x116.mzML
FILES
SCFM_control_neg
x19113x151.mzML
FILES
SCFM_control_neg
x19113x186.mzML
FILES
SCFM_control_neg
x19113x221.mzML
FILES
SCFM_control_neg
x19113x45.mzML
FILES
SCFM_control_neg
x19113x81.mzML
FILES
SCFM_evolved_neg
x19113x122.mzML
FILES
SCFM_evolved_neg
x19113x157.mzML
FILES
SCFM_evolved_neg
x19113x16.mzML
FILES
SCFM_evolved_neg
x19113x192.mzML
FILES
SCFM_evolved_neg
x19113x227.mzML
FILES
SCFM_evolved_neg
x19113x51.mzML
FILES
SCFM_evolved_neg
x19113x87.mzML
FILES
SCFM_evolved_pos
x19113x121.mzML
FILES
SCFM_evolved_pos
x19113x15.mzML
FILES
SCFM_evolved_pos
x19113x156.mzML
FILES
SCFM_evolved_pos
x19113x191.mzML
FILES
SCFM_evolved_pos
x19113x226.mzML
FILES
SCFM_evolved_pos
x19113x50.mzML
FILES
SCFM_evolved_pos
x19113x86.mzML
FILES
USA300_neg
x19113x102.mzML
FILES
USA300_neg
x19113x137.mzML
FILES
USA300_neg
x19113x172.mzML
FILES
USA300_neg
x19113x207.mzML
FILES
USA300_neg
x19113x242.mzML
FILES
USA300_neg
x19113x31.mzML
FILES
USA300_neg
x19113x66.mzML
FILES
USA300_pos
x19113x101.mzML
FILES
USA300_pos
x19113x136.mzML
FILES
USA300_pos
x19113x171.mzML
FILES
USA300_pos
x19113x206.mzML
FILES
USA300_pos
x19113x241.mzML
FILES
USA300_pos
x19113x30.mzML
FILES
USA300_pos
x19113x65.mzML
FILES
isogenic_pos
x19113x118.mzML
FILES
isogenic_pos
x19113x12.mzML
FILES
isogenic_pos
x19113x153.mzML
FILES
isogenic_pos
x19113x188.mzML
FILES
isogenic_pos
x19113x223.mzML
FILES
isogenic_pos
x19113x47.mzML
FILES
isogenic_pos
x19113x83.mzML
FILES
pooled_QC_pos
x19113x110.mzML
FILES
pooled_QC_pos
x19113x112.mzML
FILES
pooled_QC_pos
x19113x145.mzML
FILES
pooled_QC_pos
x19113x147.mzML
FILES
pooled_QC_pos
x19113x180.mzML
FILES
pooled_QC_pos
x19113x182.mzML
FILES
pooled_QC_pos
x19113x215.mzML
FILES
pooled_QC_pos
x19113x217.mzML
FILES
pooled_QC_pos
x19113x250.mzML
FILES
pooled_QC_pos
x19113x252.mzML
FILES
pooled_QC_pos
x19113x39.mzML
FILES
pooled_QC_pos
x19113x41.mzML
FILES
pooled_QC_pos
x19113x74.mzML
FILES
pooled_QC_pos
x19113x76.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Samples_Species
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Samples_Replicate
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 27
Returning 140 rows!
Added 140 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2111
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2137
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2145
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Bruker impact II UHR-TOF: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
FIAneg
00048084TP00_1Pfia-_P8A4_01_14118.mzML
FILES
DERIVED_FILES
FIAneg
00048085TP00_2Pfia-_P8A5_01_14108.mzML
FILES
DERIVED_FILES
FIAneg
00048086TP00_3Pfia-_P8A6_01_14094.mzML
FILES
DERIVED_FILES
FIAneg
00048087TP12_1Pfia-_P8A7_01_14102.mzML
FILES
DERIVED_FILES
FIAneg
00048088TP12_2Pfia-_P8A8_01_14114.mzML
FILES
DERIVED_FILES
FIAneg
00048089TP12_3Pfia-_P8A9_01_14104.mzML
FILES
DERIVED_FILES
FIAneg
00048090TP24_1Pfia-_P8B1_01_14091.mzML
FILES
DERIVED_FILES
FIAneg
00048091TP24_2Pfia-_P8B2_01_14111.mzML
FILES
DERIVED_FILES
FIAneg
00048092TP24_3Pfia-_P8B3_01_14097.mzML
FILES
DERIVED_FILES
FIAneg
00048093TP36_1Pfia-_P8B4_01_14109.mzML
FILES
DERIVED_FILES
FIAneg
00048094TP36_2Pfia-_P8B5_01_14116.mzML
FILES
DERIVED_FILES
FIAneg
00048095TP36_3Pfia-_P8B6_01_14113.mzML
FILES
DERIVED_FILES
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FILES
DERIVED_FILES
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FILES
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FILES
DERIVED_FILES
FIApos
00048459solvent_blank_5_01_14138.mzML
FILES
DERIVED_FILES
HILICneg
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FILES
DERIVED_FILES
HILICneg
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FILES
DERIVED_FILES
HILICneg
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FILES
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HILICneg
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FILES
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FILES
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DERIVED_FILES
HILICneg
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FILES
DERIVED_FILES
HILICneg
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FILES
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HILICneg
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FILES
DERIVED_FILES
HILICneg
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FILES
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HILICneg
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HILICneg
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FILES
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HILICneg
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FILES
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HILICneg
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HILICneg
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HILICneg
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HILICneg
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FILES
DERIVED_FILES
HILICneg
00048156TP48_1Philic_P3b1_01_14263.mzML
FILES
DERIVED_FILES
HILICneg
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FILES
DERIVED_FILES
HILICneg
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FILES
DERIVED_FILES
HILICneg
00048159TP60_1Philic_P3b4_01_14240.mzML
FILES
DERIVED_FILES
HILICneg
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FILES
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HILICneg
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FILES
DERIVED_FILES
HILICneg
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FILES
DERIVED_FILES
HILICneg
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HILICneg
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FILES
DERIVED_FILES
HILICneg
00048165TP84_1Philic_P3b10_01_14258.mzML
FILES
DERIVED_FILES
HILICneg
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HILICneg
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HILICneg
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FILES
DERIVED_FILES
HILICneg
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HILICneg
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HILICneg
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FILES
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HILICneg
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HILICneg
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lipidneg
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lipidneg
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lipidneg
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lipidneg
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 19%|█▉        | 319/1674 [38:25<2:29:30,  6.62s/it]
 19%|█▉        | 320/1674 [38:28<2:05:15,  5.55s/it]
 19%|█▉        | 321/1674 [38:30<1:42:47,  4.56s/it]
DERIVED_FILES
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lipidneg
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Number of rows removed due to not enough metadata: 0
Returning 224 rows!
Added 224 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2146
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2148
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2150
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G2 HDMS System: missing value
  Waters  SYNAPT-G2  Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 483 rows!
Added 483 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS217
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2171
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2199
Request successful!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 19%|█▉        | 325/1674 [38:57<2:08:12,  5.70s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 19%|█▉        | 326/1674 [39:04<2:21:15,  6.29s/it]
IGNORED:  Samples_Term Accession Number.3
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Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2026
Request successful!
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 64 rows!
Added 64 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2028
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo TQ-S: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 20%|█▉        | 327/1674 [39:13<2:40:30,  7.15s/it]
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Postnatal day
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Animal ID
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Batch
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Assay_FIA Instrument
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 231 rows!
Added 231 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2224
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977A MSD: missing value
  AB SCIEX TripleTOF 5600: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 266 rows!
Added 266 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2240
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 20%|█▉        | 329/1674 [39:32<3:00:27,  8.05s/it]
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  QTRAP 6500: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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BAL_214_warmup_and_QC-H2O warmup.mzML
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BAL_214_warmup_and_QC-NRG01.mzML
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Number of rows removed due to not enough metadata: 1
Returning 11 rows!
Added 11 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2243
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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QXA16POL20170405_HOBA0216VW_CELLS_RERUN_36.mzML
FILES
16369 SSID Data MZML
Method 4
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16369 SSID Data MZML
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Method 4
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Method 4
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Group number
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Samples_Group
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_dsDNA assay
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Samples_Group name
IGNORED:  Samples_Donor
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Bradford protein assay
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2245
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Collection time
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF
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IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
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IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Study name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
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IGNORED:  Samples_Term Source REF.4
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Number of rows removed due to not enough metadata: 0
Returning 2000 rows!
Added 2000 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2247
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 192 rows!
Added 192 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2262
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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TFHN26.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 20%|█▉        | 333/1674 [40:59<6:02:52, 16.24s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 20%|█▉        | 334/1674 [41:05<4:53:52, 13.16s/it]
FILES
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blank.raw
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Number of rows removed due to not enough metadata: 0
Returning 137 rows!
Added 137 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2279
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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Number of rows removed due to not enough metadata: 0
Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2288
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 20%|██        | 335/1674 [41:15<4:34:12, 12.29s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 54
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2313
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker impact II UHR-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
nemt1_7.mzML
FILES
DERIVED_FILES
nemt1_8.mzML
FILES
DERIVED_FILES
nrps1_34.mzML
FILES
DERIVED_FILES
nrps1_56.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
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IGNORED:  Assay_Scan polarity
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
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IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 4 rows!
Added 4 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2327
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 6545 Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
DERIVED_FILES
LCMS_Neg_mzML
14_11_214.mzML
FILES
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14_1_153.mzML
FILES
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LCMS_Neg_mzML
14_2_172.mzML
FILES
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15_34_096.mzML
FILES
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16_90_155.mzML
FILES
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FILES
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21_1_181.mzML
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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D18_008.mzML
FILES
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D19OH_191.mzML
FILES
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FILES
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FILES
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FILES
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D22_088.mzML
FILES
DERIVED_FILES
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D24OH_101.mzML
FILES
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D24OHa_059.mzML
FILES
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D24OHb_114.mzML
FILES
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D24_022.mzML
FILES
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D25_179.mzML
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D26_093.mzML
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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J02_107.mzML
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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J12_131.mzML
FILES
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J13_073.mzML
FILES
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LCMS_Neg_mzML
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FILES
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FILES
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FILES
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J17a_218.mzML
FILES
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LCMS_Neg_mzML
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FILES
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LCMS_Neg_mzML
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FILES
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LCMS_Neg_mzML
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FILES
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LCMS_Neg_mzML
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FILES
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FILES
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J27_097.mzML
FILES
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FILES
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FILES
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LCMS_Neg_mzML
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FILES
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FILES
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FILES
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FILES
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FILES
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L13_124.mzML
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LCMS_Neg_mzML
L26_222.mzML
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LCMS_Neg_mzML
L27_109.mzML
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LCMS_Neg_mzML
L32_040.mzML
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LCMS_Neg_mzML
L33_146.mzML
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LCMS_Neg_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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DERIVED_FILES
LCMS_Pos_mzML
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FILES
DERIVED_FILES
LCMS_Pos_mzML
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FILES
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LCMS_Pos_mzML
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IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Seed Parent
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Peel Weight
IGNORED:  Assay_Term Source REF.7
IGNORED:  Samples_Name in FlexQTL
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Samples_Peel Colour
IGNORED:  Assay_Data Transformation Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 20%|██        | 337/1674 [41:42<5:02:52, 13.59s/it]
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Flesh Colour
IGNORED:  Samples_LC-MS Pos Run Order
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Total Weight
IGNORED:  Samples_Collection Location
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_LC-MS Neg Run Order
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_NMR Run Order
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 466 rows!
Added 466 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2328
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 6545 Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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PooledQC16_113.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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LCMS_Pos
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DERIVED_FILES
LCMS_Pos
PooledQC9_57.mzML
FILES
DERIVED_FILES
LCMS_Pos
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Number of rows removed due to not enough metadata: 0
Returning 303 rows!
Added 303 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10078
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2347
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
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Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2349
Request successful!
SampleCollectionMethod: ADDED!
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  Thermo Scientific Q Exactive: missing value
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FILES
Covid_swab
Blank
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Blank
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Covid_swab
Blank
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Blank
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Blank
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Blank
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Blank
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Blank
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Blank
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FILES
Covid_swab
Negative
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Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
17092020_CovidSwabNeg_238_P_4.raw
FILES
Covid_swab
Negative
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Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
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Negative
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Negative
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Negative
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Negative
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FILES
Covid_swab
Negative
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Negative
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Negative
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Negative
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Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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Covid_swab
Negative
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Covid_swab
Negative
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FILES
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Negative
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Negative
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Negative
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FILES
Covid_swab
Negative
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Covid_swab
Negative
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Covid_swab
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Covid_swab
Negative
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FILES
Covid_swab
Negative
29102020_CovidNeg_S371_P_4.raw
FILES
Covid_swab
Negative
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Covid_swab
Negative
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Covid_swab
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
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FILES
Covid_swab
Negative
30102020_CovidNeg_S371_Re_P_3.raw
FILES
Covid_swab
Negative
30102020_CovidNeg_S371_Re_P_4.raw
FILES
Covid_swab
Negative
30102020_CovidNeg_S373_Re_P_2.raw
FILES
Covid_swab
Negative
30102020_CovidNeg_S373_Re_P_3.raw
FILES
Covid_swab
Negative
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FILES
Covid_swab
Non-severe
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FILES
Covid_swab
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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75172906.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_FIA Instrument
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Derivatization
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IGNORED:  Is Descendant
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IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 218 rows!
Added 218 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2382
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
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Polar_pos/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 21%|██        | 345/1674 [42:50<4:46:58, 12.96s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 1413 rows!
Added 1413 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2384
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q II: missing value
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2394
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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QXA08POL20190305_UPIT0219VWCLP_HUMAN_PLASMA1_23.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Term Source REF
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IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.5
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 382 rows!
Added 382 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2396
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS240
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2406
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Vion IMS QTof: missing value
ENVOEnvironmentBiome:
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FILES
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D1d-2.n.raw
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 110 rows!
Added 110 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2413
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2414
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker compact: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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QC_074_F142.mzML
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QI_071_F139.mzML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.7
IGNORED:  extension/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Is Organ
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 115 rows!
Added 115 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS242
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2421
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap XL: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
RAW_FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2424
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2427
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 21%|██▏       | 356/1674 [44:00<1:53:43,  5.18s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 21%|██▏       | 357/1674 [44:07<2:01:27,  5.53s/it]
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
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IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
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IGNORED:  Assay_Ion source
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 47 rows!
Added 47 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2436
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific DSQ II: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 13 rows!
Added 13 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2438
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus BT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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149.centroid.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2441
Request successful!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2442
Request successful!
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192_Serum_PB42.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 197 rows!
Added 197 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2444
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX QTRAP 6500+: missing value
  Thermo Scientific Q Exactive: missing value
  AB SCIEX QTRAP 5500: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
5AKD 1_Cholesterol.mzML
FILES
5AKD 1_DAG_TAG.mzML
FILES
5AKD 1_GPL.mzML
FILES
5AKD 1_Plasmalogens.mzML
FILES
5AKD 1_phase2_SP.raw
FILES
5AKD 1_phase3_SP.raw
FILES
5AKD 2_Cholesterol.mzML
FILES
5AKD 2_DAG_TAG.mzML
FILES
5AKD 2_GPL.mzML
FILES
5AKD 2_Plasmalogens.mzML
FILES
5AKD 2_phase2_SP.raw
FILES
5AKD 2_phase3_SP.raw
FILES
5AKD 3_Cholesterol.mzML
FILES
5AKD 3_DAG_TAG.mzML
FILES
5AKD 3_GPL.mzML
FILES
5AKD 3_Plasmalogens.mzML
FILES
5AKD 3_phase2_SP.raw
FILES
5AKD 3_phase3_SP.raw
FILES
5AKD 4_Cholesterol.mzML
FILES
5AKD 4_DAG_TAG.mzML
FILES
5AKD 4_GPL.mzML
FILES
5AKD 4_Plasmalogens.mzML
FILES
5AKD 4_phase2_SP.raw
FILES
5AKD 4_phase3_SP.raw
FILES
5AKD 5_Cholesterol.mzML
FILES
5AKD 5_DAG.mzML
FILES
5AKD 5_GPL.mzML
FILES
5AKD 5_Plasmalogens.mzML
FILES
5AKD 5_TAG.mzML
FILES
5AKD 6_Cholesterol.mzML
FILES
5AKD 6_DAG.mzML
FILES
5AKD 6_GPL.mzML
FILES
5AKD 6_Plasmalogens.mzML
FILES
5AKD 6_TAG.mzML
FILES
5AKD 7_Cholesterol.mzML
FILES
5AKD 7_DAG.mzML
FILES
5AKD 7_GPL.mzML
FILES
5AKD 7_Plasmalogens.mzML
FILES
5AKD 7_TAG.mzML
FILES
5AKD 8_Cholesterol.mzML
FILES
5AKD 8_DAG.mzML
FILES
5AKD 8_GPL.mzML
FILES
5AKD 8_Plasmalogens.mzML
FILES
5AKD 8_TAG.mzML
FILES
Kon A_Cholesterol.mzML
FILES
Kon A_DAG_TAG.mzML
FILES
Kon A_GPL.mzML
FILES
Kon A_Plasmalogens.mzML
FILES
Kon A_phase2_SP.raw
FILES
Kon A_phase3_SP.raw
FILES
Kon B_Cholesterol.mzML
FILES
Kon C_Cholesterol.mzML
FILES
PM 5AKD 1_Cholesterol.mzML
FILES
PM 5AKD 1_DAG_TAG.mzML
FILES
PM 5AKD 1_GPL.mzML
FILES
PM 5AKD 1_Plasmalogens.mzML
FILES
PM 5AKD 1_phase2_SP.raw
FILES
PM 5AKD 2_Cholesterol.mzML
FILES
PM 5AKD 2_DAG_TAG.mzML
FILES
PM 5AKD 2_GPL.mzML
FILES
PM 5AKD 2_Plasmalogens.mzML
FILES
PM 5AKD 2_phase2_SP.raw
FILES
PM 5AKD 3_Cholesterol.mzML
FILES
PM 5AKD 3_DAG_TAG.mzML
FILES
PM 5AKD 3_GPL.mzML
FILES
PM 5AKD 3_Plasmalogens.mzML
FILES
PM 5AKD 3_phase2_SP.raw
FILES
PM SCR 1_Cholesterol.mzML
FILES
PM SCR 1_DAG_TAG.mzML
FILES
PM SCR 1_GPL.mzML
FILES
PM SCR 1_Plasmalogens.mzML
FILES
PM SCR 1_phase2_SP.raw
FILES
PM SCR 2_Cholesterol.mzML
FILES
PM SCR 2_DAG_TAG.mzML
FILES
PM SCR 2_GPL.mzML
FILES
PM SCR 2_Plasmalogens.mzML
FILES
PM SCR 2_phase2_SP.raw
FILES
PM SCR 3_Cholesterol.mzML
FILES
PM SCR 3_DAG_TAG.mzML
FILES
PM SCR 3_GPL.mzML
FILES
PM SCR 3_Plasmalogens.mzML
FILES
PM SCR 3_phase2_SP.raw
FILES
SCR 1_Cholesterol.mzML
FILES
SCR 1_DAG_TAG.mzML
FILES
SCR 1_GPL.mzML
FILES
SCR 1_Plasmalogens.mzML
FILES
SCR 1_phase2_SP.raw
FILES
SCR 1_phase3_SP.raw
FILES
SCR 2_Cholesterol.mzML
FILES
SCR 2_DAG_TAG.mzML
FILES
SCR 2_GPL.mzML
FILES
SCR 2_Plasmalogens.mzML
FILES
SCR 2_phase2_SP.raw
FILES
SCR 2_phase3_SP.raw
FILES
SCR 3_Cholesterol.mzML
FILES
SCR 3_DAG_TAG.mzML
FILES
SCR 3_GPL.mzML
FILES
SCR 3_Plasmalogens.mzML
FILES
SCR 3_phase2_SP.raw
FILES
SCR 3_phase3_SP.raw
FILES
SCR 4_Cholesterol.mzML
FILES
SCR 4_DAG_TAG.mzML
FILES
SCR 4_GPL.mzML
FILES
SCR 4_Plasmalogens.mzML
FILES
SCR 4_phase2_SP.raw
FILES
SCR 4_phase3_SP.raw
FILES
SCR 5_Cholesterol.mzML
FILES
SCR 5_DAG.mzML
FILES
SCR 5_GPL.mzML
FILES
SCR 5_Plasmalogens.mzML
FILES
SCR 5_TAG.mzML
FILES
SCR 6_Cholesterol.mzML
FILES
SCR 6_DAG.mzML
FILES
SCR 6_GPL.mzML
FILES
SCR 6_Plasmalogens.mzML
FILES
SCR 6_TAG.mzML
FILES
SCR 7_Cholesterol.mzML
FILES
SCR 7_DAG.mzML
FILES
SCR 7_GPL.mzML
FILES
SCR 7_Plasmalogens.mzML
FILES
SCR 7_TAG.mzML
FILES
SCR 8_Cholesterol.mzML
FILES
SCR 8_DAG.mzML
FILES
SCR 8_GPL.mzML
FILES
SCR 8_Plasmalogens.mzML
FILES
SCR 8_TAG.mzML
FILES
solvent_Cholesterol.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Assay_DI Instrument
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample origin/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 22%|██▏       | 361/1674 [44:31<2:22:16,  6.50s/it]
 22%|██▏       | 362/1674 [44:33<1:53:35,  5.19s/it]
 22%|██▏       | 363/1674 [44:35<1:32:24,  4.23s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 22%|██▏       | 364/1674 [44:39<1:29:19,  4.09s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 22%|██▏       | 365/1674 [44:43<1:30:10,  4.13s/it]
IGNORED:  Samples_Cell treatment
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 8
Returning 119 rows!
Added 119 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2457
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS104
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10446
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  PerkinElmer TurboMass: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
GC-MS_01.cdf
FILES
GC-MS_02.cdf
FILES
GC-MS_03.cdf
FILES
GC-MS_04.cdf
FILES
GC-MS_05.cdf
FILES
GC-MS_06.cdf
FILES
GC-MS_07.cdf
FILES
GC-MS_08.cdf
FILES
GC-MS_09.cdf
FILES
GC-MS_10.cdf
FILES
QC1.cdf
FILES
QC2.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Cohort
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10453
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
M-1dpi-1n.wiff
FILES
RAW_FILES
M-1dpi-1p.wiff
FILES
RAW_FILES
M-1dpi-2n.wiff
FILES
RAW_FILES
M-1dpi-2p.wiff
FILES
RAW_FILES
M-1dpi-3n.wiff
FILES
RAW_FILES
M-1dpi-3p.wiff
FILES
RAW_FILES
M-1dpi-4n.wiff
FILES
RAW_FILES
M-1dpi-4p.wiff
FILES
RAW_FILES
M-1dpi-5n.wiff
FILES
RAW_FILES
M-1dpi-5p.wiff
FILES
RAW_FILES
M-1dpi-6n.wiff
FILES
RAW_FILES
M-1dpi-6p.wiff
FILES
RAW_FILES
M-28dpi-1n.wiff
FILES
RAW_FILES
M-28dpi-1p.wiff
FILES
RAW_FILES
M-28dpi-2n.wiff
FILES
RAW_FILES
M-28dpi-2p.wiff
FILES
RAW_FILES
M-28dpi-3n.wiff
FILES
RAW_FILES
M-28dpi-3p.wiff
FILES
RAW_FILES
M-28dpi-4n.wiff
FILES
RAW_FILES
M-28dpi-4p.wiff
FILES
RAW_FILES
M-28dpi-5n.wiff
FILES
RAW_FILES
M-28dpi-5p.wiff
FILES
RAW_FILES
M-28dpi-6n.wiff
FILES
RAW_FILES
M-28dpi-6p.wiff
FILES
RAW_FILES
M-control-1n.wiff
FILES
RAW_FILES
M-control-1p.wiff
FILES
RAW_FILES
M-control-2n.wiff
FILES
RAW_FILES
M-control-2p.wiff
FILES
RAW_FILES
M-control-3n.wiff
FILES
RAW_FILES
M-control-3p.wiff
FILES
RAW_FILES
M-control-4n.wiff
FILES
RAW_FILES
M-control-4p.wiff
FILES
RAW_FILES
M-control-5n.wiff
FILES
RAW_FILES
M-control-5p.wiff
FILES
RAW_FILES
M-control-6n.wiff
FILES
RAW_FILES
M-control-6p.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Group
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2469
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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02122020_Blank_P_1.raw
FILES
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02122020_Blank_P_2.raw
FILES
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02122020_Blank_P_3.raw
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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09122020_QCPool_Set4_P_4.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Ventilation
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_CT value
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_COVID-19 disease severity
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Final hospitalisation status
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Patient
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Comorbidity
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Respiratory illness
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 177 rows!
Added 177 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10498
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 4600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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61_20230914_scc-1.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 74 rows!
Added 74 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS247
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2472
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Surgery Type
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 22%|██▏       | 369/1674 [45:12<2:23:27,  6.60s/it]
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 367 rows!
Added 367 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2188
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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data_metabolights_MS_mzml/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Material Type
IGNORED:  Samples_Collection time point
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Gene mutation
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Final tracer concentration
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Tracer molecule
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 198 rows!
Added 198 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS220
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 272 rows!
Added 272 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2187
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1717
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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UBERONBodyPartName:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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C18_pos_003.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Samples_DRF fractions
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 132 rows!
Added 132 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2205
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6470 Triple Quadrupole: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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R100113_METAB02_MCC059_CAL3_20191213.d/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Dilution factor
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Term Source REF
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Label
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IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 20
Returning 58 rows!
Added 58 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2483
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
UBERONBodyPartName:
  : missing value
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ENVOEnvironmentMaterial:
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240220_1201.wiff/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Hypertension
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_age
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_Run Order
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Batch number
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 1447 rows!
Added 1447 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2218
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ChromatographyAndPhase:
   (Phenyl-Hexyl): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Compound
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Assay_Protocol REF.4
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Dose
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Number of rows removed due to not enough metadata: 0
Returning 184 rows!
Added 184 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS249
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10958
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2497
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
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ChromatographyAndPhase:
  : missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 108
Returning 3 rows!
Added 3 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2235
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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IonizationSourceAndPolarity:
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ChromatographyAndPhase:
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U13C_Pyr_Nuclei_R3.CDF
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U13C_Pyr_Nuclei_R4.CDF
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U13C_Suc_Lysates_R1.CDF
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U13C_Suc_Lysates_R2.CDF
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U13C_Suc_Lysates_R3.CDF
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U13C_Suc_Nuclei_R4.CDF
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DERIVED_FILES
U13C_Suc_Nuclei_R5.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 23%|██▎       | 380/1674 [46:59<2:38:47,  7.36s/it]
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 38
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2501
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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  Thermo Scientific Q Exactive Plus: missing value
  AB SCIEX QTRAP 6500: missing value
  AB SCIEX QTRAP 3200: missing value
IonizationSourceAndPolarity:
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ChromatographyAndPhase:
  : missing value
   (C18): missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
  nan: missing value
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FILES
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FILES
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FILES
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RP
35_RHMINUSAtc_1.mzML
FILES
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37_RHMINUSAtc_2.mzML
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39_RHMINUSAtc_3.mzML
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FILES
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45_RHMINUSAtc_6.mzML
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47_RHPLUSAtc_1.mzML
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49_RHPLUSAtc_2.mzML
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51_RHPLUSAtc_3.mzML
FILES
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LC-MS
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53_RHPLUSAtc_4.mzML
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55_RHPLUSAtc_5.mzML
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57_RHPLUSAtc_6.mzML
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59_iKD-DPCK-Atc_1.mzML
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61_iKD-DPCK-Atc_2.mzML
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DERIVED_FILES
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63_iKD-DPCK-Atc_3.mzML
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DERIVED_FILES
LC-MS
RP
65_iKD-DPCK-Atc_4.mzML
FILES
DERIVED_FILES
LC-MS
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67_iKD-DPCK-Atc_5.mzML
FILES
DERIVED_FILES
LC-MS
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69_iKD-DPCK-Atc_6.mzML
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71_iKD-DPCKPLUSAtc_1.mzML
FILES
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73_iKD-DPCKPLUSAtc_2.mzML
FILES
DERIVED_FILES
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RP
75_iKD-DPCKPLUSAtc_3.mzML
FILES
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RP
77_iKD-DPCKPLUSAtc_4.mzML
FILES
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RP
79_Ex-Blnk_2.mzML
FILES
DERIVED_FILES
LC-MS
RP
81_Ex-Blnk_3.mzML
FILES
DERIVED_FILES
LC-MS
RP
AcylMINUSCoA STD 300uM water MINUS 2uL_TR1.mzML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 23%|██▎       | 381/1674 [47:08<2:51:17,  7.95s/it]
DERIVED_FILES
LC-MS
RP
AcylMINUSCoA STD 300uM water MINUS 2uL_TR2.mzML
FILES
DERIVED_FILES
LC-MS
RP
Cell extract MINUS labeled w_ 13C betaMINUSalanine 3mM 48hrs MINUS water MINUS 10uL_BR1.mzML
FILES
DERIVED_FILES
LC-MS
RP
Cell extract MINUS labeled w_ 13C betaMINUSalanine 3mM 48hrs MINUS water MINUS 10uL_BR2.mzML
FILES
DERIVED_FILES
LC-MS
RP
Cell extract MINUS labeled w_ 13C betaMINUSalanine 3mM 48hrs MINUS water MINUS 10uL_BR3.mzML
FILES
DERIVED_FILES
LC-MS
RP
Cell extract MINUS labeled w_ 13C pantothenate 0.1mM 48hrs MINUS water MINUS 10uL_BR1.mzML
FILES
DERIVED_FILES
LC-MS
RP
Cell extract MINUS labeled w_ 13C pantothenate 0.1mM 48hrs MINUS water MINUS 10uL_BR2.mzML
FILES
DERIVED_FILES
LC-MS
RP
Cell extract MINUS labeled w_ 13C pantothenate 0.1mM 48hrs MINUS water MINUS 10uL_BR3.mzML
FILES
DERIVED_FILES
LC-MS
RP
Cell extract MINUS unlabeled MINUS water MINUS 10uL_BR1.mzML
FILES
DERIVED_FILES
LC-MS
RP
Cell extract MINUS unlabeled MINUS water MINUS 10uL_BR2.mzML
FILES
DERIVED_FILES
LC-MS
RP
Cell extract MINUS unlabeled MINUS water MINUS 10uL_BR3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
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IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 15
Returning 135 rows!
Added 135 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2531
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Bruker timsTOF Pro: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
Exp1-0A1.mzML
FILES
DERIVED_FILES
Exp1-0A2.mzML
FILES
DERIVED_FILES
Exp1-0D1.mzML
FILES
DERIVED_FILES
Exp1-0D2.mzML
FILES
DERIVED_FILES
Exp1-0T1.mzML
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IGNORED:  Assay_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 23%|██▎       | 382/1674 [47:15<2:45:05,  7.67s/it]
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Number of rows removed due to not enough metadata: 0
Returning 110 rows!
Added 110 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2266
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G2-Si HDMS: missing value
ENVOEnvironmentBiome:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Group
IGNORED:  Samples_Organism/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 23%|██▎       | 383/1674 [47:26<3:03:42,  8.54s/it]
 23%|██▎       | 384/1674 [47:29<2:31:59,  7.07s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 23%|██▎       | 385/1674 [47:36<2:30:32,  7.01s/it]
 23%|██▎       | 386/1674 [47:38<1:56:53,  5.45s/it]
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 419 rows!
Added 419 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2267
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2538
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
EZ_Exp258_001.raw
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.2
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11188
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1122
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-S QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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menRCCstage2_1193.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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FILES
menRCCstage3_1737.mzML
FILES
menRCCstage3_1749.mzML
FILES
menRCCstage3_1831.mzML
FILES
menRCCstage3_1877.mzML
FILES
menRCCstage3_1960.mzML
FILES
menRCCstage3_1997.mzML
FILES
menRCCstage3_2113.mzML
FILES
menRCCstage3_2223.mzML
FILES
menRCCstage3_2270.mzML
FILES
menRCCstage3_326.mzML
FILES
menRCCstage3_546.mzML
FILES
menRCCstage3_605.mzML
FILES
menRCCstage3_667.mzML
FILES
men_normal_166.mzML
FILES
men_normal_2332.mzML
FILES
men_normal_2357.mzML
FILES
men_normal_2371.mzML
FILES
men_normal_2407.mzML
FILES
men_normal_2409.mzML
FILES
men_normal_2422.mzML
FILES
men_normal_2424.mzML
FILES
men_normal_2480.mzML
FILES
men_normal_2518.mzML
FILES
men_normal_2521.mzML
FILES
men_normal_2560.mzML
FILES
men_normal_2569.mzML
FILES
men_normal_2612.mzML
FILES
men_normal_2627.mzML
FILES
men_normal_2632.mzML
FILES
men_normal_2659.mzML
FILES
men_normal_2663.mzML
FILES
men_normal_2665.mzML
FILES
men_normal_2673.mzML
FILES
men_normal_2676.mzML
FILES
men_normal_2691.mzML
FILES
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FILES
men_normal_363.mzML
FILES
men_normal_374.mzML
FILES
men_normal_50.mzML
FILES
men_normal_6.mzML
FILES
womenLCCstage1_1037.mzML
FILES
womenLCCstage1_110.mzML
FILES
womenLCCstage1_1221.mzML
FILES
womenLCCstage1_1313.mzML
FILES
womenLCCstage1_1591.mzML
FILES
womenLCCstage1_1858.mzML
FILES
womenLCCstage1_2261.mzML
FILES
womenLCCstage1_488.mzML
FILES
womenLCCstage1_577.mzML
FILES
womenLCCstage1_743.mzML
FILES
womenLCCstage2_1026.mzML
FILES
womenLCCstage2_1029.mzML
FILES
womenLCCstage2_1310.mzML
FILES
womenLCCstage2_1407.mzML
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
womenLCCstage2_276.mzML
FILES
womenLCCstage2_434.mzML
FILES
womenLCCstage2_468.mzML
FILES
womenLCCstage2_504.mzML
FILES
womenLCCstage2_574.mzML
FILES
womenLCCstage2_581.mzML
FILES
womenLCCstage2_618.mzML
FILES
womenLCCstage2_95.mzML
FILES
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FILES
womenLCCstage3_1404.mzML
FILES
womenLCCstage3_1440.mzML
FILES
womenLCCstage3_1631.mzML
FILES
womenLCCstage3_1783.mzML
FILES
womenLCCstage3_189.mzML
FILES
womenLCCstage3_1890.mzML
FILES
womenLCCstage3_2105.mzML
FILES
womenLCCstage3_2291.mzML
FILES
womenLCCstage3_23.mzML
FILES
womenLCCstage3_2594.mzML
FILES
womenLCCstage3_439.mzML
FILES
womenLCCstage3_515.mzML
FILES
womenLCCstage3_522.mzML
FILES
womenLCCstage3_734.mzML
FILES
womenLCCstage3_888.mzML
FILES
womenLCCstage3_903.mzML
FILES
womenLCCstage3_938.mzML
FILES
womenRCCstage1_1617.mzML
FILES
womenRCCstage1_1963.mzML
FILES
womenRCCstage1_2038.mzML
FILES
womenRCCstage1_2202.mzML
FILES
womenRCCstage1_2235.mzML
FILES
womenRCCstage1_2258.mzML
FILES
womenRCCstage1_2600.mzML
FILES
womenRCCstage1_2668.mzML
FILES
womenRCCstage1_491.mzML
FILES
womenRCCstage1_910.mzML
FILES
womenRCCstage1_941.mzML
FILES
womenRCCstage2_1014.mzML
FILES
womenRCCstage2_1190.mzML
FILES
womenRCCstage2_1196.mzML
FILES
womenRCCstage2_1304.mzML
FILES
womenRCCstage2_1514.mzML
FILES
womenRCCstage2_1665.mzML
FILES
womenRCCstage2_1683.mzML
FILES
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FILES
womenRCCstage2_1733.mzML
FILES
womenRCCstage2_1846.mzML
FILES
womenRCCstage2_1937.mzML
FILES
womenRCCstage2_1987.mzML
FILES
womenRCCstage2_2066.mzML
FILES
womenRCCstage2_2479.mzML
FILES
womenRCCstage2_261.mzML
FILES
womenRCCstage2_2654.mzML
FILES
womenRCCstage2_315.mzML
FILES
womenRCCstage2_419.mzML
FILES
womenRCCstage2_64.mzML
FILES
womenRCCstage2_830.mzML
FILES
womenRCCstage2_896.mzML
FILES
womenRCCstage3_1224.mzML
FILES
womenRCCstage3_1237.mzML
FILES
womenRCCstage3_1316.mzML
FILES
womenRCCstage3_1327.mzML
FILES
womenRCCstage3_1363.mzML
FILES
womenRCCstage3_1455.mzML
FILES
womenRCCstage3_149.mzML
FILES
womenRCCstage3_1855.mzML
FILES
womenRCCstage3_1924.mzML
FILES
womenRCCstage3_2208.mzML
FILES
womenRCCstage3_2244.mzML
FILES
womenRCCstage3_2303.mzML
FILES
womenRCCstage3_2494.mzML
FILES
womenRCCstage3_289.mzML
FILES
womenRCCstage3_721.mzML
FILES
womenRCCstage3_955.mzML
FILES
womenRCCstage3_958.mzML
FILES
womenRCCstage_1216.mzML
FILES
women_normal_11.mzML
FILES
women_normal_2316.mzML
FILES
women_normal_2478.mzML
FILES
women_normal_2495.mzML
FILES
women_normal_2550.mzML
FILES
women_normal_264.mzML
FILES
women_normal_2655.mzML
FILES
women_normal_2670.mzML
FILES
women_normal_2705.mzML
FILES
women_normal_4.mzML
FILES
women_normal_834.mzML
FILES
women_normal_9.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Disease staging
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 264 rows!
Added 264 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2274
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
191027_S1_LC02MS02_016_QC01_.mzML
FILES
191027_S1_LC02MS02_017_QC02_.mzML
FILES
191027_S1_LC02MS02_018_SAM03922_A_upper_0h_cells.mzML
FILES
191027_S1_LC02MS02_019_SAM03923_B_upper_0h_cells.mzML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 23%|██▎       | 388/1674 [47:52<2:12:24,  6.18s/it]
191027_S1_LC02MS02_020_SAM03924_C_upper_0h_cells.mzML
FILES
191027_S1_LC02MS02_021_SAM03925_D_upper_0h_control.mzML
FILES
191027_S1_LC02MS02_022_SAM03926_A_upper_6h_cells.mzML
FILES
191027_S1_LC02MS02_023_QC03_.mzML
FILES
191027_S1_LC02MS02_024_SAM03927_B_upper_6h_cells.mzML
FILES
191027_S1_LC02MS02_025_SAM03928_C_upper_6h_cells.mzML
FILES
191027_S1_LC02MS02_026_SAM03929_D_upper_6h_control.mzML
FILES
191027_S1_LC02MS02_027_SAM03930_A_upper_12h_cells.mzML
FILES
191027_S1_LC02MS02_028_SAM03931_B_upper_12h_cells.mzML
FILES
191027_S1_LC02MS02_029_QC04_.mzML
FILES
191027_S1_LC02MS02_030_SAM03932_C_upper_12h_cells.mzML
FILES
191027_S1_LC02MS02_031_SAM03933_D_upper_12h_control.mzML
FILES
191027_S1_LC02MS02_032_SAM03934_A_upper_24h_cells.mzML
FILES
191027_S1_LC02MS02_033_SAM03935_B_upper_24h_cells.mzML
FILES
191027_S1_LC02MS02_034_SAM03936_C_upper_24h_cells.mzML
FILES
191027_S1_LC02MS02_035_QC05_.mzML
FILES
191027_S1_LC02MS02_036_SAM03937_D_upper_24h_control.mzML
FILES
191027_S1_LC02MS02_037_SAM03938_A_upper_48h_cells.mzML
FILES
191027_S1_LC02MS02_038_SAM03939_B_upper_48h_cells.mzML
FILES
191027_S1_LC02MS02_039_SAM03940_C_upper_48h_cells.mzML
FILES
191027_S1_LC02MS02_040_SAM03941_D_upper_48h_control.mzML
FILES
191027_S1_LC02MS02_041_QC06_.mzML
FILES
191027_S1_LC02MS02_042_SAM03942_A_lower_0h_cells.mzML
FILES
191027_S1_LC02MS02_043_SAM03943_B_lower_0h_cells.mzML
FILES
191027_S1_LC02MS02_044_SAM03944_C_lower_0h_cells.mzML
FILES
191027_S1_LC02MS02_045_SAM03945_D_lower_0h_control.mzML
FILES
191027_S1_LC02MS02_046_SAM03946_A_lower_6h_cells.mzML
FILES
191027_S1_LC02MS02_047_QC07_.mzML
FILES
191027_S1_LC02MS02_048_SAM03947_B_lower_6h_cells.mzML
FILES
191027_S1_LC02MS02_049_SAM03948_C_lower_6h_cells.mzML
FILES
191027_S1_LC02MS02_050_SAM03949_D_lower_6h_control.mzML
FILES
191027_S1_LC02MS02_051_SAM03950_A_lower_12h_cells.mzML
FILES
191027_S1_LC02MS02_052_SAM03951_B_lower_12h_cells.mzML
FILES
191027_S1_LC02MS02_053_QC08_.mzML
FILES
191027_S1_LC02MS02_054_SAM03952_C_lower_12h_cells.mzML
FILES
191027_S1_LC02MS02_055_SAM03953_D_lower_12h_control.mzML
FILES
191027_S1_LC02MS02_056_SAM03954_A_lower_24h_cells.mzML
FILES
191027_S1_LC02MS02_057_SAM03955_B_lower_24h_cells.mzML
FILES
191027_S1_LC02MS02_058_SAM03956_C_lower_24h_cells.mzML
FILES
191027_S1_LC02MS02_059_QC09_.mzML
FILES
191027_S1_LC02MS02_060_SAM03957_D_lower_24h_control.mzML
FILES
191027_S1_LC02MS02_061_SAM03958_A_lower_48h_cells.mzML
FILES
191027_S1_LC02MS02_062_SAM03959_B_lower_48h_cells.mzML
FILES
191027_S1_LC02MS02_063_SAM03960_C_lower_48h_cells.mzML
FILES
191027_S1_LC02MS02_064_SAM03961_D_lower_48h_control.mzML
FILES
191027_S1_LC02MS02_065_QC10_.mzML
FILES
191027_S1_LC02MS02_066_QC11_.mzML
FILES
191027_S1_LC02MS02_067_Blank_.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
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Number of rows removed due to not enough metadata: 0
Returning 52 rows!
Added 52 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2542
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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20P02830317_CSHC18_POS.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
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Number of rows removed due to not enough metadata: 0
Returning 642 rows!
Added 642 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11360
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11375
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11379
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2323
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2550
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2559
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
Negative
AcoR1_1.mzXML
FILES
DERIVED_FILES
Negative
AcoR1_2.mzXML
FILES
DERIVED_FILES
Negative
AcoR1_3.mzXML
FILES
DERIVED_FILES
Negative
AcoR1_4.mzXML
FILES
DERIVED_FILES
Negative
AcoR1_Aco_1.mzXML
FILES
DERIVED_FILES
Negative
AcoR1_Aco_2.mzXML
FILES
DERIVED_FILES
Negative
AcoR1_Aco_3.mzXML
FILES
DERIVED_FILES
Negative
AcoR1_Aco_4.mzXML
FILES
DERIVED_FILES
Negative
AcoR2_1.mzXML
FILES
DERIVED_FILES
Negative
AcoR2_2.mzXML
FILES
DERIVED_FILES
Negative
AcoR2_3.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 24%|██▎       | 395/1674 [48:32<1:39:40,  4.68s/it]
 24%|██▎       | 396/1674 [48:34<1:18:40,  3.69s/it]
 24%|██▎       | 397/1674 [48:35<1:02:43,  2.95s/it]
FILES
DERIVED_FILES
Negative
AcoR2_4.mzXML
FILES
DERIVED_FILES
Negative
AcoR2_Aco_1.mzXML
FILES
DERIVED_FILES
Negative
AcoR2_Aco_2.mzXML
FILES
DERIVED_FILES
Negative
AcoR2_Aco_3.mzXML
FILES
DERIVED_FILES
Negative
AcoR2_Aco_4.mzXML
FILES
DERIVED_FILES
Negative
Pool_1.mzXML
FILES
DERIVED_FILES
Negative
Pool_2.mzXML
FILES
DERIVED_FILES
Negative
Pool_3.mzXML
FILES
DERIVED_FILES
Negative
Pool_4.mzXML
FILES
DERIVED_FILES
Negative
Pool_5.mzXML
FILES
DERIVED_FILES
Negative
Pool_6.mzXML
FILES
DERIVED_FILES
Negative
WT_1.mzXML
FILES
DERIVED_FILES
Negative
WT_2.mzXML
FILES
DERIVED_FILES
Negative
WT_3.mzXML
FILES
DERIVED_FILES
Negative
WT_4.mzXML
FILES
DERIVED_FILES
Negative
WT_Aco_1.mzXML
FILES
DERIVED_FILES
Negative
WT_Aco_2.mzXML
FILES
DERIVED_FILES
Negative
WT_Aco_3.mzXML
FILES
DERIVED_FILES
Negative
WT_Aco_4.mzXML
FILES
DERIVED_FILES
Negative
blank1.mzXML
FILES
DERIVED_FILES
Negative
blank2.mzXML
FILES
DERIVED_FILES
Negative
blank3.mzXML
FILES
DERIVED_FILES
Negative
blank4.mzXML
FILES
DERIVED_FILES
Negative
blank5.mzXML
FILES
DERIVED_FILES
Negative
blank6.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Assay_Derived Spectral Data File.1
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS256
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1739
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1737
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 5975T MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
1108201703.cdf
FILES
1108201704.cdf
FILES
1108201705.cdf
FILES
1108201706.cdf
FILES
1108201707.cdf
FILES
1108201708.cdf
FILES
1108201709.cdf
FILES
1108201710.cdf
FILES
1108201711.cdf
FILES
1108201712.cdf
FILES
1108201713.cdf
FILES
1108201714.cdf
FILES
1108201715.cdf
FILES
1108201716.cdf
FILES
1109201702.cdf
FILES
1109201703.cdf
FILES
1109201704.cdf
FILES
1109201705.cdf
FILES
1109201706.cdf
FILES
1109201707.cdf
FILES
1109201708.cdf
FILES
1109201709.cdf
FILES
1109201710.cdf
FILES
1110201702.cdf
FILES
1110201703.cdf
FILES
1110201704.cdf
FILES
1110201705.cdf
FILES
1110201706.cdf
FILES
1111201702.cdf
FILES
1111201703.cdf
FILES
1111201704.cdf
FILES
1111201705.cdf
FILES
1111201706.cdf
FILES
1111201707.cdf
FILES
1111201708.cdf
FILES
1111201709.cdf
FILES
1111201710.cdf
FILES
1111201711.cdf
FILES
1111201712.cdf
FILES
1111201713.cdf
FILES
1111201714.cdf
FILES
1113201702.cdf
FILES
1113201703.cdf
FILES
1113201704.cdf
FILES
1113201705.cdf
FILES
1113201706.cdf
FILES
1113201707.cdf
FILES
1113201708.cdf
FILES
1113201709.cdf
FILES
1113201710.cdf
FILES
1113201711.cdf
FILES
1113201712.cdf
FILES
1113201713.cdf
FILES
1113201714.cdf
FILES
18_02011806.cdf
FILES
18_02011807.cdf
FILES
18_02011808.cdf
FILES
18_02011809.cdf
FILES
18_02011810.cdf
FILES
18_02011811.cdf
FILES
18_02011812.cdf
FILES
18_02011813.cdf
FILES
18_02011814.cdf
FILES
18_02021804.cdf
FILES
18_02021805.cdf
FILES
18_02021806.cdf
FILES
18_02021807.cdf
FILES
18_02021808.cdf
FILES
18_02021809.cdf
FILES
18_02021810.cdf
FILES
18_02021811.cdf
FILES
18_02021812.cdf
FILES
18_02021813.cdf
FILES
18_02021814.cdf
FILES
18_02021815.cdf
FILES
18_02021816.cdf
FILES
18_09271803_BLANK FIBER.cdf
FILES
18_09271804_BHI_MEDIA_6HR.cdf
FILES
18_09271805_BA_AMES_R1_6HR.cdf
FILES
18_09271806_BA_AMES_R1_24HR.cdf
FILES
18_09271807_BA_AMES_R2_6HR.cdf
FILES
18_09271808_BA_AMES_R2_24HR.cdf
FILES
18_09271809_BA_AMES_R3_6HR.cdf
FILES
18_09271810_BA_AMES_R3_24HR.cdf
FILES
18_09271811_BHI_BLANK_2.cdf
FILES
18_09281803_BLANK_SPME_1.cdf
FILES
18_09281804_MH_MEDIA_1.cdf
FILES
18_09281805_FT_SCHUS4_6HR.cdf
FILES
18_09281806_FT_SCHUS4_R1_24HR.cdf
FILES
18_09281807_FT_SCHUS4_R2_6HR.cdf
FILES
18_09281808_FT_SCHUS4_R2_24HR.cdf
FILES
18_09281809_FT_SCHUS4_R3_6HR.cdf
FILES
18_09281810_FT_SCHUS4_R3_24HR.cdf
FILES
18_09281811_MH MEDIA_2.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Time Post Inoculation
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 24%|██▍       | 398/1674 [48:43<1:35:36,  4.50s/it]
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Culture Replicate
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 94 rows!
Added 94 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS233
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
001_CRa_H9M5_M470_Blank_01_alternate_neg.mzML
FILES
001_CRa_H9M5_M470_Blank_01_alternate_neg_high_mr.mzML
FILES
001_CRa_H9M5_M470_Blank_01_alternate_neg_low_mr.mzML
FILES
001_CRa_H9M5_M470_Blank_01_alternate_pos.mzML
FILES
001_CRa_H9M5_M470_Blank_01_alternate_pos_high_mr.mzML
FILES
001_CRa_H9M5_M470_Blank_01_alternate_pos_low_mr.mzML
FILES
001_CRa_H9M5_M470_Blank_01_ges_neg.mzML
FILES
001_CRa_H9M5_M470_Blank_01_ges_pos.mzML
FILES
001_CRa_H9M5_M470_Blank_01_high_neg.mzML
FILES
001_CRa_H9M5_M470_Blank_01_high_pos.mzML
FILES
001_CRa_H9M5_M470_Blank_01_low_neg.mzML
FILES
001_CRa_H9M5_M470_Blank_01_low_pos.mzML
FILES
002_CRa_H9M5_M470_Pool_01_alternate_neg.mzML
FILES
002_CRa_H9M5_M470_Pool_01_alternate_neg_high_mr.mzML
FILES
002_CRa_H9M5_M470_Pool_01_alternate_neg_low_mr.mzML
FILES
002_CRa_H9M5_M470_Pool_01_alternate_pos.mzML
FILES
002_CRa_H9M5_M470_Pool_01_alternate_pos_high_mr.mzML
FILES
002_CRa_H9M5_M470_Pool_01_alternate_pos_low_mr.mzML
FILES
002_CRa_H9M5_M470_Pool_01_ges_neg.mzML
FILES
002_CRa_H9M5_M470_Pool_01_ges_pos.mzML
FILES
002_CRa_H9M5_M470_Pool_01_high_neg.mzML
FILES
002_CRa_H9M5_M470_Pool_01_high_pos.mzML
FILES
002_CRa_H9M5_M470_Pool_01_low_neg.mzML
FILES
002_CRa_H9M5_M470_Pool_01_low_pos.mzML
FILES
003_CRa_H9M5_M470_Pool_02_alternate_neg.mzML
FILES
003_CRa_H9M5_M470_Pool_02_alternate_neg_high_mr.mzML
FILES
003_CRa_H9M5_M470_Pool_02_alternate_neg_low_mr.mzML
FILES
003_CRa_H9M5_M470_Pool_02_alternate_pos.mzML
FILES
003_CRa_H9M5_M470_Pool_02_alternate_pos_high_mr.mzML
FILES
003_CRa_H9M5_M470_Pool_02_alternate_pos_low_mr.mzML
FILES
003_CRa_H9M5_M470_Pool_02_ges_neg.mzML
FILES
003_CRa_H9M5_M470_Pool_02_ges_pos.mzML
FILES
003_CRa_H9M5_M470_Pool_02_high_neg.mzML
FILES
003_CRa_H9M5_M470_Pool_02_high_pos.mzML
FILES
003_CRa_H9M5_M470_Pool_02_low_neg.mzML
FILES
003_CRa_H9M5_M470_Pool_02_low_pos.mzML
FILES
005_CRa_H9M5_M470_Blank_02_alternate_neg.mzML
FILES
005_CRa_H9M5_M470_Blank_02_alternate_neg_high_mr.mzML
FILES
005_CRa_H9M5_M470_Blank_02_alternate_neg_low_mr.mzML
FILES
005_CRa_H9M5_M470_Blank_02_alternate_pos.mzML
FILES
005_CRa_H9M5_M470_Blank_02_alternate_pos_high_mr.mzML
FILES
005_CRa_H9M5_M470_Blank_02_alternate_pos_low_mr.mzML
FILES
005_CRa_H9M5_M470_Blank_02_ges_neg.mzML
FILES
005_CRa_H9M5_M470_Blank_02_ges_pos.mzML
FILES
005_CRa_H9M5_M470_Blank_02_high_neg.mzML
FILES
005_CRa_H9M5_M470_Blank_02_high_pos.mzML
FILES
005_CRa_H9M5_M470_Blank_02_low_neg.mzML
FILES
005_CRa_H9M5_M470_Blank_02_low_pos.mzML
FILES
006_CRa_H9M5_M470_H01_K1_alternate_neg.mzML
FILES
006_CRa_H9M5_M470_H01_K1_alternate_neg_high_mr.mzML
FILES
006_CRa_H9M5_M470_H01_K1_alternate_neg_low_mr.mzML
FILES
006_CRa_H9M5_M470_H01_K1_alternate_pos.mzML
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006_CRa_H9M5_M470_H01_K1_alternate_pos_high_mr.mzML
FILES
006_CRa_H9M5_M470_H01_K1_alternate_pos_low_mr.mzML
FILES
006_CRa_H9M5_M470_H01_K1_ges_neg.mzML
FILES
006_CRa_H9M5_M470_H01_K1_ges_pos.mzML
FILES
006_CRa_H9M5_M470_H01_K1_high_neg.mzML
FILES
006_CRa_H9M5_M470_H01_K1_high_pos.mzML
FILES
006_CRa_H9M5_M470_H01_K1_low_neg.mzML
FILES
006_CRa_H9M5_M470_H01_K1_low_pos.mzML
FILES
007_CRa_H9M5_M470_L01_K2_alternate_neg.mzML
FILES
007_CRa_H9M5_M470_L01_K2_alternate_neg_high_mr.mzML
FILES
007_CRa_H9M5_M470_L01_K2_alternate_neg_low_mr.mzML
FILES
007_CRa_H9M5_M470_L01_K2_alternate_pos.mzML
FILES
007_CRa_H9M5_M470_L01_K2_alternate_pos_high_mr.mzML
FILES
007_CRa_H9M5_M470_L01_K2_alternate_pos_low_mr.mzML
FILES
007_CRa_H9M5_M470_L01_K2_ges_neg.mzML
FILES
007_CRa_H9M5_M470_L01_K2_ges_pos.mzML
FILES
007_CRa_H9M5_M470_L01_K2_high_neg.mzML
FILES
007_CRa_H9M5_M470_L01_K2_high_pos.mzML
FILES
007_CRa_H9M5_M470_L01_K2_low_neg.mzML
FILES
007_CRa_H9M5_M470_L01_K2_low_pos.mzML
FILES
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 528 rows!
Added 528 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2333
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 93 rows!
Added 93 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2579
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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UBERONBodyPartName:
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Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Pasture
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 16
Returning 168 rows!
Added 168 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2352
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2356
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Vantage: missing value
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mtab_BIOS_temporal_TSQ_2019_1129_99.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.6/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 24%|██▍       | 403/1674 [49:44<4:07:13, 11.67s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
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IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Depth
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Minute of the hour
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Sampling year date
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IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Sampling month date
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
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IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
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IGNORED:  Samples_Term Accession Number.10
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IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 1488 rows!
Added 744 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2585
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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  Agilent 7000B Triple Quadrupole: missing value
IonizationSourceAndPolarity:
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ChromatographyAndPhase:
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ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.3
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_Inflorescence
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
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IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Location
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS259
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2594
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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K_TB2_1.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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X_K_Y3_1.mzXML
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X_MS_PE2_1.mzXML
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X_MS_PE3_4.mzXML
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X_MS_PE3_5.mzXML
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X_MS_TB1_2.mzXML
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X_MS_Y3_1.mzXML
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RAW_FILES
X_MS_Y3_3.mzXML
FILES
RAW_FILES
X_MS_Y3_4.mzXML
FILES
RAW_FILES
X_MS_Y3_5.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Cohort
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Samples_Treatment
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 148 rows!
Added 148 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2597
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C inert XL MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
082319B-04.CDF
FILES
DERIVED_FILES
082319B-05.CDF
FILES
DERIVED_FILES
082319B-06.CDF
FILES
DERIVED_FILES
082319B-10.CDF
FILES
DERIVED_FILES
082319B-11.CDF
FILES
DERIVED_FILES
082319B-12.CDF
FILES
DERIVED_FILES
082319B-16.CDF
FILES
DERIVED_FILES
082319B-17.CDF
FILES
DERIVED_FILES
082319B-18.CDF
FILES
DERIVED_FILES
082319B-22.CDF
FILES
DERIVED_FILES
082319B-23.CDF
FILES
DERIVED_FILES
082319B-24.CDF
FILES
DERIVED_FILES
082319B-27.CDF
FILES
DERIVED_FILES
082319B-28.CDF
FILES
DERIVED_FILES
082319B-29.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 24%|██▍       | 407/1674 [50:05<2:26:50,  6.95s/it]
 24%|██▍       | 408/1674 [50:07<1:53:52,  5.40s/it]
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 25%|██▍       | 412/1674 [50:15<58:54,  2.80s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 25%|██▍       | 413/1674 [50:20<1:09:27,  3.31s/it]
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS260
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS261
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2612
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS241
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2627
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS263
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
3injections_inj1_NEG.mzML
FILES
3injections_inj1_POS.mzML
FILES
3injections_inj2_NEG.mzML
FILES
3injections_inj2_POS.mzML
FILES
3injections_inj3_NEG.mzML
FILES
3injections_inj3_POS.mzML
FILES
3samples_sampl1_NEG.mzML
FILES
3samples_sampl1_POS.mzML
FILES
3samples_sampl2_NEG.mzML
FILES
3samples_sampl2_POS.mzML
FILES
3samples_sampl3_NEG.mzML
FILES
3samples_sampl3_POS.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Injection replicate
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Is Fluid
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IGNORED:  Assay_Column type
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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Preparation replicate
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2630
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  LECO Pegasus 4D: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
0.5_hours_A_1.cdf
FILES
0.5_hours_B_1.cdf
FILES
0.5_hours_C_1.cdf
FILES
0_hours_A_1.cdf
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4_hours_A_1.cdf
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4_hours_B_1.cdf
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4_hours_C_1.cdf
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6_hours_A_1.cdf
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6_hours_B_1.cdf
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6_hours_C_1.cdf
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Exp2_2D_Blank_1.cdf
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Exp2_QC1.cdf
FILES
Exp2_QC1_1.cdf
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Exp2_QC1_2.cdf
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Exp2_QC2_1.cdf
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Exp2_QC2_2.cdf
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Exp2_QC2_3.cdf
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Exp2_YZ_t0_-A_1.cdf
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Exp2_YZ_t0_-B_1.cdf
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Exp2_YZ_t0_-C_1.cdf
FILES
Exp2_YZ_t1_-A_1.cdf
FILES
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Exp3_2D_Blank_2.cdf
FILES
Exp3_Emix_0A_1.cdf
FILES
Exp3_Emix_0B_1.cdf
FILES
Exp3_Emix_0C_1.cdf
FILES
Exp3_Emix_1A_1.cdf
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Exp3_Emix_1C_1.cdf
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Exp4_25_D__40uL_with_0.2_fames_1.cdf
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Exp4_37_B_2.cdf
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Exp4_37_D_3.cdf
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Exp4_4_B_1.cdf
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Exp4_4_B_2.cdf
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Exp4_4_B_3.cdf
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Exp4_4_C_1.cdf
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Exp4_4_C_2.cdf
FILES
Exp4_4_C_3.cdf
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Exp4_4_D_1.cdf
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Exp4_4_D_2.cdf
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Exp4_4_D_3.cdf
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Exp4_QC1_1.cdf
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Exp4_QC1_2.cdf
FILES
Exp4_QC1_3.cdf
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Exp4_QC2_1.cdf
FILES
Exp4_QC2_2.cdf
FILES
Exp4_QC2_3.cdf
FILES
Exp4_QC3_1.cdf
FILES
Exp4_QC3_2.cdf
FILES
Exp4_QC3_3.cdf
FILES
Exp5_100_J_0h_1.cdf
FILES
Exp5_100_J_0h_2.cdf
FILES
Exp5_100_J_0h_3.cdf
FILES
Exp5_100_J_12h_1.cdf
FILES
Exp5_100_J_12h_2.cdf
FILES
Exp5_100_J_12h_3.cdf
FILES
Exp5_100_J_1h_1.cdf
FILES
Exp5_100_J_1h_2.cdf
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Exp5_100_J_1h_3.cdf
FILES
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FILES
Exp5_100_J_4h_3.cdf
FILES
Exp5_25_J_0h_1.cdf
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Exp5_25_J_0h_2.cdf
FILES
Exp5_25_J_0h_3.cdf
FILES
Exp5_25_J_12h_1.cdf
FILES
Exp5_25_J_12h_2.cdf
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Exp5_25_J_12h_3.cdf
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Exp5_25_J_1h_1.cdf
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Exp5_25_J_1h_2.cdf
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Exp5_25_J_1h_3.cdf
FILES
Exp5_25_J_4h_1.cdf
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Exp5_25_J_4h_2.cdf
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Exp5_25_J_4h_3.cdf
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Exp5_2D_Blank_1.cdf
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Exp5_300_J_0h_1.cdf
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Exp5_300_J_0h_2.cdf
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Exp5_300_J_0h_3.cdf
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Exp5_300_J_12h_1.cdf
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Exp5_300_J_12h_2.cdf
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Exp5_300_J_12h_3.cdf
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Exp5_300_J_1h_1.cdf
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Exp5_300_J_1h_2.cdf
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Exp5_300_J_1h_3.cdf
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Exp5_300_J_4h_1.cdf
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Exp5_300_J_4h_2.cdf
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Exp5_300_J_4h_3.cdf
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Exp5_QC1_1.cdf
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Exp5_QC1_2.cdf
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Exp5_QC1_3.cdf
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Exp5_QC2_1.cdf
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Exp5_QC2_2.cdf
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Exp5_QC2_4.cdf
FILES
Exp5_QC3_40ul_1.cdf
FILES
Exp5_QC3_40ul_2.cdf
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Exp5_QC3_40ul_3.cdf
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Exp6_2D_blank_1.cdf
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Exp6_Native_t0_1.cdf
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Exp6_Native_t0_2.cdf
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Exp6_Native_t0_3.cdf
FILES
Exp6_Native_t1_1.cdf
FILES
Exp6_Native_t1_2.cdf
FILES
Exp6_Native_t1_3.cdf
FILES
Exp6_Native_t4_1.cdf
FILES
Exp6_Native_t4_2.cdf
FILES
Exp6_Native_t4_3.cdf
FILES
Exp6_QC1_1.cdf
FILES
Exp6_QC1_2.cdf
FILES
Exp6_QC1_3.cdf
FILES
Exp6_QC2_1.cdf
FILES
Exp6_QC2_2.cdf
FILES
Exp6_QC2_3.cdf
FILES
Exp6_QC3_1.cdf
FILES
Exp6_QC3_2.cdf
FILES
Exp6_QC3_3.cdf
FILES
Exp6_gltA_t0_1.cdf
FILES
Exp6_gltA_t0_2.cdf
FILES
Exp6_gltA_t0_3.cdf
FILES
Exp6_gltA_t1_1.cdf
FILES
Exp6_gltA_t1_2.cdf
FILES
Exp6_gltA_t1_3.cdf
FILES
Exp6_gltA_t4_1.cdf
FILES
Exp6_gltA_t4_2.cdf
FILES
Exp6_gltA_t4_40ul_1.cdf
FILES
Exp6_ldhA_t0_1.cdf
FILES
Exp6_ldhA_t0_2.cdf
FILES
Exp6_ldhA_t0_3.cdf
FILES
Exp6_ldhA_t1_1.cdf
FILES
Exp6_ldhA_t1_2.cdf
FILES
Exp6_ldhA_t1_3.cdf
FILES
Exp6_ldhA_t4_1.cdf
FILES
Exp6_ldhA_t4_2.cdf
FILES
Exp6_ldhA_t4_3.cdf
FILES
Exp6_pgk_t0_1.cdf
FILES
Exp6_pgk_t0_2.cdf
FILES
Exp6_pgk_t0_3.cdf
FILES
Exp6_pgk_t1_1.cdf
FILES
Exp6_pgk_t1_2.cdf
FILES
Exp6_pgk_t1_3.cdf
FILES
Exp6_pgk_t4_1.cdf
FILES
Exp6_pgk_t4_2.cdf
FILES
Exp6_pgk_t4_3.cdf
FILES
QC1_1.cdf
FILES
QC1_2.cdf
FILES
QC1_3.cdf
FILES
QC2_1.cdf
FILES
QC2_2.cdf
FILES
QC2_3.cdf
FILES
YZ_t1_-C_1.cdf
FILES
YZ_t4_-A_1.cdf
FILES
YZ_t4_-A_2.cdf
FILES
YZ_t4_-C_1.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Column type 1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Complete CFE reaction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Column model 2
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Enzyme
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Sonication energy input
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Column model 1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_Lysate pre-incubation temperature
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type 2
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 12
Returning 171 rows!
Added 171 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2633
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2634
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Shimadzu GCMS-QP2010 Ultra: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
10cm_1.mzXML
FILES
10cm_2.mzXML
FILES
10cm_3.mzXML
FILES
10cm_4.mzXML
FILES
15cm_1.mzXML
FILES
15cm_2.mzXML
FILES
15cm_3.mzXML
FILES
15cm_4.mzXML
FILES
20cm_1.mzXML
FILES
20cm_2.mzXML
FILES
20cm_3.mzXML
FILES
20cm_4.mzXML
FILES
30cm_1.mzXML
FILES
30cm_2.mzXML
FILES
30cm_3.mzXML
FILES
30cm_4.mzXML
FILES
8cm_1.mzXML
FILES
8cm_2.mzXML
FILES
8cm_3.mzXML
FILES
8cm_4.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_plant density
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 25%|██▍       | 416/1674 [50:39<1:46:17,  5.07s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 25%|██▍       | 417/1674 [50:45<1:52:51,  5.39s/it]
Returning 20 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2639
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker Daltonics autoflex speed MALDI-TOF(/TOF): missing value
  Thermo Scientific Q Exactive HF: missing value
  Thermo Scientific Q Exactive Plus: missing value
IonizationSourceAndPolarity:
   (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
150417_EW_Section4_pos.d
FILES
150429_EW_Section2_pos.d
FILES
150429_EW_section1_pos.d
FILES
150505_EW_Section3_pos.d
FILES
20191210_MS56_SpermidinStd_70_160_SDHB_pos_A25_50um_20x4_MSMS146.mzML
FILES
20191216_MS56_EarthWorm_SL2_50_600_SDHB_pos_A25_20um_20x10_MSMS_482.mzML
FILES
section2.3_DHB_100_1000_pos_250x250_A30_8um.RAW
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Max dimension x
IGNORED:  Assay_Stain
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Linescan sequence
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Section location
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Target material
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Unnamed: 60
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Resolving power m/z
IGNORED:  Assay_Tissue modification
IGNORED:  Assay_Unit.3
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Unnamed: 59
IGNORED:  Assay_Unit.2
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Assay_High-res image
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Max dimension y
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Sectioning instrument
IGNORED:  Assay_Pixel size x
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Resolving power
IGNORED:  Assay_Unit.5
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Scan type
IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Low-res image
IGNORED:  Assay_Matrix application
IGNORED:  keep
IGNORED:  Assay_Line scan direction
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Max count of pixel x
IGNORED:  Assay_Scan pattern
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Sample preservation
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Instrument software version
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Section thickness
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Matrix
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Pixel size y
IGNORED:  Assay_Solvent
IGNORED:  Assay_Spectrum representation
IGNORED:  filename_lower
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Spatial resolution
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 1
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS266
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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Person23_plasma_elder_NEG.mzML
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Person23_plasma_elder_POS.mzML
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Person30_plasma_elder_NEG.mzML
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Person30_plasma_elder_POS.mzML
IGNORED:  Samples_Age group
IGNORED:  Assay_Term Source REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 25%|██▍       | 418/1674 [50:51<1:53:22,  5.42s/it]
 25%|██▌       | 419/1674 [51:04<2:38:42,  7.59s/it]
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS124
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1820
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Vantage: missing value
  Thermo Scientific Orbitrap Fusion Lumos Tribrid: missing value
FILES
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Sarcopenic_metaboloma_pos3a.raw
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blanks and QC files
Sarcopenic_metaboloma_pos_branco_b.raw
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IGNORED:  Assay_Derivatization/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 25%|██▌       | 423/1674 [51:32<2:41:59,  7.77s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 25%|██▌       | 424/1674 [51:36<2:23:03,  6.87s/it]
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 133 rows!
Added 133 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2688
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS185
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific Exactive: missing value
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FILES
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BL_V1_S023.raw
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PO2_V1_S059.raw
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PO2_V5_S198.raw
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PO2_V5_S199.raw
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IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 25%|██▌       | 425/1674 [51:41<2:06:31,  6.08s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 25%|██▌       | 426/1674 [51:47<2:07:05,  6.11s/it]
 26%|██▌       | 427/1674 [51:49<1:42:00,  4.91s/it]
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 41 rows!
Added 41 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2689
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific Q Exactive: missing value
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FILES
DERIVED_FILES
extracted_pos
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FILES
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L10.mzXML
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L2.mzXML
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L4.mzXML
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DERIVED_FILES
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L5.mzXML
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DERIVED_FILES
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L6.mzXML
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DERIVED_FILES
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L7.mzXML
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DERIVED_FILES
extracted_pos
L8.mzXML
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DERIVED_FILES
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L9.mzXML
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DERIVED_FILES
extracted_pos
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FILES
RAW_FILES
Stds1_1_24JAN20.raw
FILES
RAW_FILES
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RAW_FILES
Stds3_1_24JAN20.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 3
Returning 14 rows!
Added 14 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2692
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS27
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters GCT Premier: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
EMILY_FAMESTANDARD01.CDF
FILES
EMILY_FAMESTANDARD02.CDF
FILES
EMILY_FAMESTANDARD03.CDF
FILES
EMILY_FAMESTANDARD04.CDF
FILES
EMILY_FAMESTANDARD05.CDF
FILES
EMILY_FAMESTANDARD06.CDF
FILES
EMILY_FAMESTANDARD07.CDF
FILES
EMILY_FAMESTANDARD08.CDF
FILES
EMILY_SAMPLE03.CDF
FILES
EMILY_SAMPLE06.CDF
FILES
EMILY_SAMPLE07.CDF
FILES
EMILY_SAMPLE08.CDF
FILES
EMILY_SAMPLE09.CDF
FILES
EMILY_SAMPLE101.CDF
FILES
EMILY_SAMPLE102.CDF
FILES
EMILY_SAMPLE104.CDF
FILES
EMILY_SAMPLE105.CDF
FILES
EMILY_SAMPLE106.CDF
FILES
EMILY_SAMPLE107.CDF
FILES
EMILY_SAMPLE108.CDF
FILES
EMILY_SAMPLE109.CDF
FILES
EMILY_SAMPLE11.CDF
FILES
EMILY_SAMPLE110.CDF
FILES
EMILY_SAMPLE111.CDF
FILES
EMILY_SAMPLE112.CDF
FILES
EMILY_SAMPLE113.CDF
FILES
EMILY_SAMPLE114.CDF
FILES
EMILY_SAMPLE116.CDF
FILES
EMILY_SAMPLE118.CDF
FILES
EMILY_SAMPLE119.CDF
FILES
EMILY_SAMPLE12.CDF
FILES
EMILY_SAMPLE120.CDF
FILES
EMILY_SAMPLE121.CDF
FILES
EMILY_SAMPLE122.CDF
FILES
EMILY_SAMPLE123.CDF
FILES
EMILY_SAMPLE13.CDF
FILES
EMILY_SAMPLE14.CDF
FILES
EMILY_SAMPLE17.CDF
FILES
EMILY_SAMPLE18.CDF
FILES
EMILY_SAMPLE19.CDF
FILES
EMILY_SAMPLE20.CDF
FILES
EMILY_SAMPLE21.CDF
FILES
EMILY_SAMPLE22.CDF
FILES
EMILY_SAMPLE23.CDF
FILES
EMILY_SAMPLE25.CDF
FILES
EMILY_SAMPLE26.CDF
FILES
EMILY_SAMPLE27.CDF
FILES
EMILY_SAMPLE28.CDF
FILES
EMILY_SAMPLE29.CDF
FILES
EMILY_SAMPLE30.CDF
FILES
EMILY_SAMPLE32.CDF
FILES
EMILY_SAMPLE34.CDF
FILES
EMILY_SAMPLE35.CDF
FILES
EMILY_SAMPLE36.CDF
FILES
EMILY_SAMPLE37.CDF
FILES
EMILY_SAMPLE38.CDF
FILES
EMILY_SAMPLE40.CDF
FILES
EMILY_SAMPLE41.CDF
FILES
EMILY_SAMPLE44.CDF
FILES
EMILY_SAMPLE45.CDF
FILES
EMILY_SAMPLE47.CDF
FILES
EMILY_SAMPLE49.CDF
FILES
EMILY_SAMPLE50.CDF
FILES
EMILY_SAMPLE52.CDF
FILES
EMILY_SAMPLE53.CDF
FILES
EMILY_SAMPLE54.CDF
FILES
EMILY_SAMPLE55.CDF
FILES
EMILY_SAMPLE57.CDF
FILES
EMILY_SAMPLE58.CDF
FILES
EMILY_SAMPLE59.CDF
FILES
EMILY_SAMPLE60.CDF
FILES
EMILY_SAMPLE61.CDF
FILES
EMILY_SAMPLE63.CDF
FILES
EMILY_SAMPLE64.CDF
FILES
EMILY_SAMPLE65.CDF
FILES
EMILY_SAMPLE67.CDF
FILES
EMILY_SAMPLE68.CDF
FILES
EMILY_SAMPLE69.CDF
FILES
EMILY_SAMPLE71.CDF
FILES
EMILY_SAMPLE72.CDF
FILES
EMILY_SAMPLE74.CDF
FILES
EMILY_SAMPLE75.CDF
FILES
EMILY_SAMPLE76.CDF
FILES
EMILY_SAMPLE77.CDF
FILES
EMILY_SAMPLE78.CDF
FILES
EMILY_SAMPLE79.CDF
FILES
EMILY_SAMPLE80.CDF
FILES
EMILY_SAMPLE81.CDF
FILES
EMILY_SAMPLE82.CDF
FILES
EMILY_SAMPLE83.CDF
FILES
EMILY_SAMPLE85.CDF
FILES
EMILY_SAMPLE86.CDF
FILES
EMILY_SAMPLE87.CDF
FILES
EMILY_SAMPLE88.CDF
FILES
EMILY_SAMPLE89.CDF
FILES
EMILY_SAMPLE90.CDF
FILES
EMILY_SAMPLE91.CDF
FILES
EMILY_SAMPLE92.CDF
FILES
EMILY_SAMPLE93.CDF
FILES
EMILY_SAMPLE94.CDF
FILES
EMILY_SAMPLE96.CDF
FILES
EMILY_SAMPLE97.CDF
FILES
EMILY_SAMPLE98.CDF
FILES
EMILY_SAMPLE99.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Run
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 26%|██▌       | 428/1674 [51:57<2:01:23,  5.85s/it]
 26%|██▌       | 429/1674 [51:59<1:34:15,  4.54s/it]
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Time elapsed between last radiation therapy and serum collection
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Time elapsed between last chemotherapy and serum collection
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Most recent treatment
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Disease staging
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 8
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS188
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS270
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Micromass Q-Tof micro: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
SG2W1001.CDF
FILES
SG2W101.CDF
FILES
SG2W201.CDF
FILES
SG2W301.CDF
FILES
SG2W401.CDF
FILES
SG2W501.CDF
FILES
SG2W601.CDF
FILES
SG2W701.CDF
FILES
SG2W801.CDF
FILES
SG2W901.CDF
FILES
SG3W1001.CDF
FILES
SG3W101.CDF
FILES
SG3W201.CDF
FILES
SG3W301.CDF
FILES
SG3W401.CDF
FILES
SG3W501.CDF
FILES
SG3W601.CDF
FILES
SG3W701.CDF
FILES
SG3W801.CDF
FILES
SG3W901.CDF
FILES
SG4W1001.CDF
FILES
SG4W101.CDF
FILES
SG4W201.CDF
FILES
SG4W301.CDF
FILES
SG4W401.CDF
FILES
SG4W501.CDF
FILES
SG4W601.CDF
FILES
SG4W701.CDF
FILES
SG4W801.CDF
FILES
SK3W1001.CDF
FILES
SK3W101.CDF
FILES
SK3W201.CDF
FILES
SK3W301.CDF
FILES
SK3W401.CDF
FILES
SK3W501.CDF
FILES
SK3W601.CDF
FILES
SK3W701.CDF
FILES
SK3W801.CDF
FILES
SK3W901.CDF
FILES
SK4W1001.CDF
FILES
SK4W101.CDF
FILES
SK4W201.CDF
FILES
SK4W301.CDF
FILES
SK4W401.CDF
FILES
SK4W501.CDF
FILES
SK4W601.CDF
FILES
SK4W701.CDF
FILES
SK4W801.CDF
FILES
SK4W901.CDF
FILES
SW2W1001.CDF
FILES
SW2W101.CDF
FILES
SW2W201.CDF
FILES
SW2W301.CDF
FILES
SW2W401.CDF
FILES
SW2W501.CDF
FILES
SW2W601.CDF
FILES
SW2W701.CDF
FILES
SW2W801.CDF
FILES
SW3W1001.CDF
FILES
SW3W101.CDF
FILES
SW3W201.CDF
FILES
SW3W301.CDF
FILES
SW3W401.CDF
FILES
SW3W501.CDF
FILES
SW3W601.CDF
FILES
SW3W701.CDF
FILES
SW3W801.CDF
FILES
SW3W901.CDF
FILES
TG2W1001.CDF
FILES
TG2W101.CDF
FILES
TG2W201.CDF
FILES
TG2W301.CDF
FILES
TG2W401.CDF
FILES
TG2W501.CDF
FILES
TG2W601.CDF
FILES
TG2W701.CDF
FILES
TG2W801.CDF
FILES
TG2W901.CDF
FILES
TG3W1001.CDF
FILES
TG3W101.CDF
FILES
TG3W201.CDF
FILES
TG3W301.CDF
FILES
TG3W401.CDF
FILES
TG3W501.CDF
FILES
TG3W601.CDF
FILES
TG3W701.CDF
FILES
TG3W801.CDF
FILES
TG3W901.CDF
FILES
TG4W1001.CDF
FILES
TG4W101.CDF
FILES
TG4W201.CDF
FILES
TG4W301.CDF
FILES
TG4W401.CDF
FILES
TG4W501.CDF
FILES
TG4W601.CDF
FILES
TG4W701.CDF
FILES
TG4W801.CDF
FILES
TG4W901.CDF
FILES
TK3W1001.CDF
FILES
TK3W101.CDF
FILES
TK3W201.CDF
FILES
TK3W301.CDF
FILES
TK3W401.CDF
FILES
TK3W501.CDF
FILES
TK3W601.CDF
FILES
TK3W701.CDF
FILES
TK3W801.CDF
FILES
TK3W901.CDF
FILES
TK4W1001.CDF
FILES
TK4W101.CDF
FILES
TK4W201.CDF
FILES
TK4W301.CDF
FILES
TK4W401.CDF
FILES
TK4W501.CDF
FILES
TK4W601.CDF
FILES
TK4W701.CDF
FILES
TK4W801.CDF
FILES
TK4W901.CDF
FILES
TW2W1001.CDF
FILES
TW2W101.CDF
FILES
TW2W201.CDF
FILES
TW2W401.CDF
FILES
TW2W501.CDF
FILES
TW2W601.CDF
FILES
TW2W701.CDF
FILES
TW2W801.CDF
FILES
TW2W901.CDF
FILES
TW3W1001.CDF
FILES
TW3W101.CDF
FILES
TW3W201.CDF
FILES
TW3W301.CDF
FILES
TW3W401.CDF
FILES
TW3W501.CDF
FILES
TW3W701.CDF
FILES
TW3W801.CDF
FILES
TW3W901.CDF
FILES
VG2W1001.CDF
FILES
VG2W101.CDF
FILES
VG2W201.CDF
FILES
VG2W301.CDF
FILES
VG2W401.CDF
FILES
VG2W501.CDF
FILES
VG2W601.CDF
FILES
VG2W701.CDF
FILES
VG2W801.CDF
FILES
VG2W901.CDF
FILES
VG3W1001.CDF
FILES
VG3W101.CDF
FILES
VG3W201.CDF
FILES
VG3W301.CDF
FILES
VG3W401.CDF
FILES
VG3W501.CDF
FILES
VG3W601.CDF
FILES
VG3W701.CDF
FILES
VG3W901.CDF
FILES
VG4W1001.CDF
FILES
VG4W101.CDF
FILES
VG4W201.CDF
FILES
VG4W401.CDF
FILES
VG4W501.CDF
FILES
VG4W601.CDF
FILES
VG4W701.CDF
FILES
VG4W801.CDF
FILES
VG4W901.CDF
FILES
VK3W1001.CDF
FILES
VK3W101.CDF
FILES
VK3W201.CDF
FILES
VK3W301.CDF
FILES
VK3W401.CDF
FILES
VK3W501.CDF
FILES
VK3W601.CDF
FILES
VK3W701.CDF
FILES
VK3W801.CDF
FILES
VK3W901.CDF
FILES
VK4W1001.CDF
FILES
VK4W101.CDF
FILES
VK4W201.CDF
FILES
VK4W301.CDF
FILES
VK4W401.CDF
FILES
VK4W501.CDF
FILES
VK4W601.CDF
FILES
VK4W701.CDF
FILES
VK4W801.CDF
FILES
VK4W901.CDF
FILES
VW2W1001.CDF
FILES
VW2W101.CDF
FILES
VW2W201.CDF
FILES
VW2W301.CDF
FILES
VW2W401.CDF
FILES
VW2W501.CDF
FILES
VW2W601.CDF
FILES
VW2W701.CDF
FILES
VW2W801.CDF
FILES
VW2W901.CDF
FILES
VW3W1001.CDF
FILES
VW3W101.CDF
FILES
VW3W201.CDF
FILES
VW3W301.CDF
FILES
VW3W401.CDF
FILES
VW3W501.CDF
FILES
VW3W601.CDF
FILES
VW3W701.CDF
FILES
VW3W801.CDF
FILES
VW3W901.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Duration of forcing
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Variety
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Temperature of forcing
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 26%|██▌       | 430/1674 [52:06<1:55:05,  5.55s/it]
 26%|██▌       | 431/1674 [52:08<1:29:06,  4.30s/it]
 26%|██▌       | 432/1674 [52:09<1:11:52,  3.47s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 26%|██▌       | 433/1674 [52:15<1:27:56,  4.25s/it]
 26%|██▌       | 434/1674 [52:17<1:10:00,  3.39s/it]
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 204 rows!
Added 204 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS191
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS273
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1333
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
FILES
QExHF03_NM_0000125.mzML
FILES
QExHF03_NM_0000127.mzML
FILES
QExHF03_NM_0000129.mzML
FILES
QExHF03_NM_0000131.mzML
FILES
QExHF03_NM_0000133.mzML
FILES
QExHF03_NM_0000135.mzML
FILES
QExHF03_NM_0000137.mzML
FILES
QExHF03_NM_0000139.mzML
FILES
QExHF03_NM_0000141.mzML
FILES
QExHF03_NM_0000143.mzML
FILES
QExHF03_NM_0000145.mzML
FILES
QExHF03_NM_0000147.mzML
FILES
QExHF03_NM_0000149.mzML
FILES
QExHF03_NM_0000151.mzML
FILES
QExHF03_NM_0000153.mzML
FILES
QExHF03_NM_0000155.mzML
FILES
QExHF03_NM_0000157.mzML
FILES
QExHF03_NM_0000159.mzML
FILES
QExHF03_NM_0000161.mzML
FILES
QExHF03_NM_0000163.mzML
FILES
QExHF03_NM_0001269.mzML
FILES
QExHF03_NM_0001271.mzML
FILES
QExHF03_NM_0001273.mzML
FILES
QExHF03_NM_0001275.mzML
FILES
QExHF03_NM_0001277.mzML
FILES
QExHF03_NM_0001279.mzML
FILES
QExHF03_NM_0001281.mzML
FILES
QExHF03_NM_0001283.mzML
FILES
QExHF03_NM_0001285.mzML
FILES
QExHF03_NM_0001287.mzML
FILES
QExHF03_NM_0001289.mzML
FILES
QExHF03_NM_0001291.mzML
FILES
QExHF03_NM_0001295.mzML
FILES
QExHF03_NM_0001297.mzML
FILES
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Number of rows removed due to not enough metadata: 58
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS253
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS193
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 6540 Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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D12_207b3_r002.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Batch
IGNORED:  Samples_Term Source REF.2
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 25
Returning 286 rows!
Added 286 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS277
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Time point
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Nano material
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 420 rows!
Added 420 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2771
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Sampling time
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 57 rows!
Added 57 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2772
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Q Exactive HF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 767 rows!
Added 767 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2774
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS278
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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ENVOEnvironmentBiome:
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IGNORED:  Assay_Ion source/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Dose
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 33 rows!
Added 33 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS279
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2795
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific Q Exactive Plus: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Term Source REF.10
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Growth temperature
IGNORED:  Samples_Collection Time Point
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 26%|██▋       | 442/1674 [53:27<2:14:44,  6.56s/it]
 26%|██▋       | 443/1674 [53:29<1:42:55,  5.02s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 27%|██▋       | 444/1674 [53:34<1:42:56,  5.02s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Additive
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 120 rows!
Added 120 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2801
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2806
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
FILES
M101.raw
FILES
M102.raw
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FILES
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QC1.raw
FILES
QC2.raw
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QC3.raw
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QC4.raw
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QC5.raw
FILES
QC6.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS281
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
  Thermo Scientific TSQ Vantage: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
mtab_sponge_ft_10.mzXML
FILES
mtab_sponge_ft_11.mzXML
FILES
mtab_sponge_ft_12.mzXML
FILES
mtab_sponge_ft_13.mzXML
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mtab_sponge_ft_14.mzXML
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mtab_sponge_ft_15.mzXML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Protocol REF
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
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IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Sample Type
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 3
Returning 32 rows!
Added 28 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS282
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2824
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2825
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS283
Request successful!
SampleCollectionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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SampleExtractionMethod: ADDED!
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SubjectIdentifierAsRecorded: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2831
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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DepthorAltitudeMeters: ADDED!
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13C3V2017RPPOSITIVELEAF01.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 133 rows!
Added 133 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2840
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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FILES
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52_Calu3_SARS_CoV_2_MOCK_DMEM_24h_2407.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Tracer
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Number of rows removed due to not enough metadata: 12
Returning 112 rows!
Added 112 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2841
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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IGNORED:  Assay_Protocol REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Variant
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Number of rows removed due to not enough metadata: 0
Returning 25 rows!
Added 25 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2851
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 27%|██▋       | 453/1674 [54:26<2:25:42,  7.16s/it]
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 16
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2855
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion Lumos Tribrid: missing value
  Thermo Scientific TSQ Vantage: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 592 rows!
Added 296 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS286
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2863
Request successful!
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Number of rows removed due to not enough metadata: 0
Returning 3 rows!
Added 3 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2870
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
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MassSpectrometer:
  Thermo Scientific Orbitrap Elite: missing value
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  : missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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pos_day4_5.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2876
Request successful!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 1437 rows!
Added 1437 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS288
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  ThermoQuest Voyager: missing value
IonizationSourceAndPolarity:
  electron ionization (negative): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_different cultivar
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_rice seed developmental stage
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 27%|██▋       | 460/1674 [55:37<4:00:40, 11.89s/it]
 28%|██▊       | 461/1674 [55:39<3:00:14,  8.92s/it]
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 28%|██▊       | 463/1674 [55:49<2:27:37,  7.31s/it]
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 81 rows!
Added 81 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS289
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2903
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS291
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker maXis UHR-ToF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Cel_1-A,8_01_21040.mzML
FILES
Cel_1-A,8_02_21041.mzML
FILES
Cel_1-A,8_03_21042.mzML
FILES
Cel_1-A,8_04_21043.mzML
FILES
Cel_1-A,8_05_21044.mzML
FILES
Cel_AutoMS_2-A,2_01_18611.mzML
FILES
Cel_AutoMS_2-A,2_02_18612.mzML
FILES
Cel_AutoMS_2-A,2_03_18613.mzML
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Cel_AutoMS_2-A,2_04_18614.mzML
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Cel_AutoMS_2-A,2_05_18615.mzML
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Cer_brain_1-A,6_01_21030.mzML
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Cer_brain_1-A,6_02_21031.mzML
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Cer_brain_AutoMS_2-A,3_03_18462.mzML
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Cer_brain_AutoMS_2-A,3_04_18463.mzML
FILES
Cer_brain_AutoMS_2-A,3_05_18464.mzML
FILES
Cer_egg_1-A,5_01_21025.mzML
FILES
Cer_egg_1-A,5_02_21026.mzML
FILES
Cer_egg_1-A,5_03_21027.mzML
FILES
Cer_egg_1-A,5_04_21028.mzML
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Cer_egg_1-A,5_05_21029.mzML
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Cer_egg_AutoMS_2-A,4_01_18475.mzML
FILES
Cer_egg_AutoMS_2-A,4_02_18476.mzML
FILES
Cer_egg_AutoMS_2-A,4_03_18477.mzML
FILES
Cer_egg_AutoMS_2-A,4_04_18478.mzML
FILES
Cer_egg_AutoMS_2-A,4_05_18479.mzML
FILES
PC_1-A,3_01_21015.mzML
FILES
PC_1-A,3_02_21016.mzML
FILES
PC_1-A,3_03_21017.mzML
FILES
PC_1-A,3_04_21018.mzML
FILES
PC_1-A,3_05_21019.mzML
FILES
PC_AutoMS_2-B,2_01_18566.mzML
FILES
PC_AutoMS_2-B,2_02_18567.mzML
FILES
PC_AutoMS_2-B,2_03_18568.mzML
FILES
PC_AutoMS_2-B,2_04_18569.mzML
FILES
PC_AutoMS_2-B,2_05_18570.mzML
FILES
PE_PG_1-A,2_01_21010.mzML
FILES
PE_PG_1-A,2_02_21011.mzML
FILES
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FILES
PE_PG_1-A,2_04_21013.mzML
FILES
PE_PG_1-A,2_05_21014.mzML
FILES
PE_PG_AutoMS_2-B,3_01_18581.mzML
FILES
PE_PG_AutoMS_2-B,3_02_18582.mzML
FILES
PE_PG_AutoMS_2-B,3_03_18583.mzML
FILES
PE_PG_AutoMS_2-B,3_04_18584.mzML
FILES
PE_PG_AutoMS_2-B,3_05_18585.mzML
FILES
PI_1-A,7_01_21035.mzML
FILES
PI_1-A,7_02_21036.mzML
FILES
PI_1-A,7_03_21037.mzML
FILES
PI_1-A,7_04_21038.mzML
FILES
PI_1-A,7_05_21039.mzML
FILES
PI_AutoMS_2-A,5_01_18490.mzML
FILES
PI_AutoMS_2-A,5_02_18491.mzML
FILES
PI_AutoMS_2-A,5_03_18492.mzML
FILES
PI_AutoMS_2-A,5_04_18493.mzML
FILES
PI_AutoMS_2-A,5_05_18494.mzML
FILES
PS_1-A,4_01_21020.mzML
FILES
PS_1-A,4_02_21021.mzML
FILES
PS_1-A,4_03_21022.mzML
FILES
PS_1-A,4_04_21023.mzML
FILES
PS_1-A,4_05_21024.mzML
FILES
PS_AutoMS_2-B,4_01_18596.mzML
FILES
PS_AutoMS_2-B,4_02_18597.mzML
FILES
PS_AutoMS_2-B,4_03_18598.mzML
FILES
PS_AutoMS_2-B,4_04_18599.mzML
FILES
PS_AutoMS_2-B,4_05_18600.mzML
FILES
TG_AutoMS_2-A,6_01_18505.mzML
FILES
TG_AutoMS_2-A,6_02_18506.mzML
FILES
TG_AutoMS_2-A,6_03_18507.mzML
FILES
TG_AutoMS_2-A,6_04_18508.mzML
FILES
TG_AutoMS_2-A,6_05_18509.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Replicate
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 45
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2914
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker maXis II UHR-ToF: missing value
FILES
DERIVED_FILES
ALK01MSMS.mzXML
FILES
DERIVED_FILES
ALK02MSMS.mzXML
FILES
DERIVED_FILES
ALK03MSMS.mzXML
FILES
DERIVED_FILES
ALK04MSMS.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 28%|██▊       | 464/1674 [55:54<2:14:17,  6.66s/it]
 28%|██▊       | 465/1674 [55:56<1:45:02,  5.21s/it]
 28%|██▊       | 466/1674 [55:57<1:21:35,  4.05s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 28%|██▊       | 467/1674 [56:02<1:28:25,  4.40s/it]
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2935
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2942
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2945
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
C10_neg.raw
FILES
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C1_neg.raw
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C2_neg.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 46 rows!
Added 46 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2956
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
200616_AC_01_PP_1.raw
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RAW_FILES
200616_AC_03_PP_3.raw
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RAW_FILES
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200616_AC_Blank_2.raw
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200616_AC_Blank_3.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Is Organ
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Cultivar
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 28%|██▊       | 468/1674 [56:09<1:41:55,  5.07s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 28%|██▊       | 469/1674 [56:17<2:01:29,  6.05s/it]
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 19 rows!
Added 19 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2959
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
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MassSpectrometer:
  Thermo Scientific Orbitrap Eclipse: missing value
ChromatographyAndPhase:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_MS mode
IGNORED:  Samples_Mixture
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 58
Returning 3 rows!
Added 3 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2960/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 28%|██▊       | 470/1674 [56:24<2:04:49,  6.22s/it]
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
IonizationSourceAndPolarity:
   (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Raw data file format
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Number of rows removed due to not enough metadata: 0
Returning 28 rows!
Added 28 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2963
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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 28%|██▊       | 472/1674 [56:40<2:13:56,  6.69s/it]
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IGNORED:  Samples_Term Source REF.4
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IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 434 rows!
Added 434 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2967
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS297
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
LA 1777 Blatt sauer1.mzML
FILES
LA 1777 Blatt sauer2.mzML
FILES
LA 1777 Blatt sauer3.mzML
FILES
LA 1777 Trichome sauer1.mzML
FILES
LA 1777 Trichome sauer2.mzML
FILES
LA 1777 Trichome sauer3.mzML
FILES
LA 4024 Blatt sauer1.mzML
FILES
LA 4024 Blatt sauer2.mzML
FILES
LA 4024 Blatt sauer3.mzML
FILES
LA 4024 Trichome sauer1.mzML
FILES
LA 4024 Trichome sauer2.mzML
FILES
LA 4024 Trichome sauer3.mzML
FILES
LA1777 Blatt sauer1 neg 0.5uL.mzML
FILES
LA1777 Blatt sauer2 neg 0.5uL.mzML
FILES
LA1777 Blatt sauer3 neg 0.5uL.mzML
FILES
LA1777 Trichome sauer1 neg 0.5uL.mzML
FILES
LA1777 Trichome sauer2 neg 0.5uL.mzML
FILES
LA1777 Trichome sauer3 neg 0.5uL.mzML
FILES
LA4024 Blatt sauer1 neg 0.5uL.mzML
FILES
LA4024 Blatt sauer2 neg 0.5uL.mzML
FILES
LA4024 Blatt sauer3 neg 0.5uL.mzML
FILES
LA4024 Trichome sauer1 neg 0.5uL.mzML
FILES
LA4024 Trichome sauer2 neg 0.5uL.mzML
FILES
LA4024 Trichome sauer3 neg 0.5uL.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Protocol REF.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_BioSamples Accession
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 28%|██▊       | 473/1674 [56:46<2:05:15,  6.26s/it]
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Organ
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_BioSamples Accession
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2970
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
FaG-Derived
Serie_1_NEG_1.mzXML
FILES
FaG-Derived
Serie_1_NEG_10.mzXML
FILES
FaG-Derived
Serie_1_NEG_100.mzXML
FILES
FaG-Derived
Serie_1_NEG_101.mzXML
FILES
FaG-Derived
Serie_1_NEG_102.mzXML
FILES
FaG-Derived
Serie_1_NEG_103.mzXML
FILES
FaG-Derived
Serie_1_NEG_104.mzXML
FILES
FaG-Derived
Serie_1_NEG_105.mzXML
FILES
FaG-Derived
Serie_1_NEG_106.mzXML
FILES
FaG-Derived
Serie_1_NEG_107.mzXML
FILES
FaG-Derived
Serie_1_NEG_108.mzXML
FILES
FaG-Derived
Serie_1_NEG_109.mzXML
FILES
FaG-Derived
Serie_1_NEG_11.mzXML
FILES
FaG-Derived
Serie_1_NEG_110.mzXML
FILES
FaG-Derived
Serie_1_NEG_111.mzXML
FILES
FaG-Derived
Serie_1_NEG_112.mzXML
FILES
FaG-Derived
Serie_1_NEG_113.mzXML
FILES
FaG-Derived
Serie_1_NEG_114.mzXML
FILES
FaG-Derived
Serie_1_NEG_115.mzXML
FILES
FaG-Derived
Serie_1_NEG_116.mzXML
FILES
FaG-Derived
Serie_1_NEG_117.mzXML
FILES
FaG-Derived
Serie_1_NEG_118.mzXML
FILES
FaG-Derived
Serie_1_NEG_119.mzXML
FILES
FaG-Derived
Serie_1_NEG_12.mzXML
FILES
FaG-Derived
Serie_1_NEG_120.mzXML
FILES
FaG-Derived
Serie_1_NEG_121.mzXML
FILES
FaG-Derived
Serie_1_NEG_122.mzXML
FILES
FaG-Derived
Serie_1_NEG_123.mzXML
FILES
FaG-Derived
Serie_1_NEG_124.mzXML
FILES
FaG-Derived
Serie_1_NEG_125.mzXML
FILES
FaG-Derived
Serie_1_NEG_126.mzXML
FILES
FaG-Derived
Serie_1_NEG_127.mzXML
FILES
FaG-Derived
Serie_1_NEG_128.mzXML
FILES
FaG-Derived
Serie_1_NEG_129.mzXML
FILES
FaG-Derived
Serie_1_NEG_13.mzXML
FILES
FaG-Derived
Serie_1_NEG_130.mzXML
FILES
FaG-Derived
Serie_1_NEG_131.mzXML
FILES
FaG-Derived
Serie_1_NEG_132.mzXML
FILES
FaG-Derived
Serie_1_NEG_133.mzXML
FILES
FaG-Derived
Serie_1_NEG_134.mzXML
FILES
FaG-Derived
Serie_1_NEG_135.mzXML
FILES
FaG-Derived
Serie_1_NEG_136.mzXML
FILES
FaG-Derived
Serie_1_NEG_137.mzXML
FILES
FaG-Derived
Serie_1_NEG_138.mzXML
FILES
FaG-Derived
Serie_1_NEG_139.mzXML
FILES
FaG-Derived
Serie_1_NEG_14.mzXML
FILES
FaG-Derived
Serie_1_NEG_140.mzXML
FILES
FaG-Derived
Serie_1_NEG_141.mzXML
FILES
FaG-Derived
Serie_1_NEG_142.mzXML
FILES
FaG-Derived
Serie_1_NEG_143.mzXML
FILES
FaG-Derived
Serie_1_NEG_144.mzXML
FILES
FaG-Derived
Serie_1_NEG_145.mzXML
FILES
FaG-Derived
Serie_1_NEG_146.mzXML
FILES
FaG-Derived
Serie_1_NEG_147.mzXML
FILES
FaG-Derived
Serie_1_NEG_148.mzXML
FILES
FaG-Derived
Serie_1_NEG_149.mzXML
FILES
FaG-Derived
Serie_1_NEG_15.mzXML
FILES
FaG-Derived
Serie_1_NEG_150.mzXML
FILES
FaG-Derived
Serie_1_NEG_152.mzXML
FILES
FaG-Derived
Serie_1_NEG_153.mzXML
FILES
FaG-Derived
Serie_1_NEG_154.mzXML
FILES
FaG-Derived
Serie_1_NEG_155.mzXML
FILES
FaG-Derived
Serie_1_NEG_156.mzXML
FILES
FaG-Derived
Serie_1_NEG_157.mzXML
FILES
FaG-Derived
Serie_1_NEG_16.mzXML
FILES
FaG-Derived
Serie_1_NEG_17.mzXML
FILES
FaG-Derived
Serie_1_NEG_18.mzXML
FILES
FaG-Derived
Serie_1_NEG_19.mzXML
FILES
FaG-Derived
Serie_1_NEG_2.mzXML
FILES
FaG-Derived
Serie_1_NEG_20.mzXML
FILES
FaG-Derived
Serie_1_NEG_21.mzXML
FILES
FaG-Derived
Serie_1_NEG_22.mzXML
FILES
FaG-Derived
Serie_1_NEG_23.mzXML
FILES
FaG-Derived
Serie_1_NEG_24.mzXML
FILES
FaG-Derived
Serie_1_NEG_25.mzXML
FILES
FaG-Derived
Serie_1_NEG_26.mzXML
FILES
FaG-Derived
Serie_1_NEG_27.mzXML
FILES
FaG-Derived
Serie_1_NEG_28.mzXML
FILES
FaG-Derived
Serie_1_NEG_29.mzXML
FILES
FaG-Derived
Serie_1_NEG_3.mzXML
FILES
FaG-Derived
Serie_1_NEG_30.mzXML
FILES
FaG-Derived
Serie_1_NEG_31.mzXML
FILES
FaG-Derived
Serie_1_NEG_32.mzXML
FILES
FaG-Derived
Serie_1_NEG_34.mzXML
FILES
FaG-Derived
Serie_1_NEG_35.mzXML
FILES
FaG-Derived
Serie_1_NEG_36.mzXML
FILES
FaG-Derived
Serie_1_NEG_37.mzXML
FILES
FaG-Derived
Serie_1_NEG_39.mzXML
FILES
FaG-Derived
Serie_1_NEG_4.mzXML
FILES
FaG-Derived
Serie_1_NEG_40.mzXML
FILES
FaG-Derived
Serie_1_NEG_41.mzXML
FILES
FaG-Derived
Serie_1_NEG_42.mzXML
FILES
FaG-Derived
Serie_1_NEG_43.mzXML
FILES
FaG-Derived
Serie_1_NEG_44.mzXML
FILES
FaG-Derived
Serie_1_NEG_45.mzXML
FILES
FaG-Derived
Serie_1_NEG_46.mzXML
FILES
FaG-Derived
Serie_1_NEG_47.mzXML
FILES
FaG-Derived
Serie_1_NEG_48.mzXML
FILES
FaG-Derived
Serie_1_NEG_49.mzXML
FILES
FaG-Derived
Serie_1_NEG_5.mzXML
FILES
FaG-Derived
Serie_1_NEG_50.mzXML
FILES
FaG-Derived
Serie_1_NEG_51.mzXML
FILES
FaG-Derived
Serie_1_NEG_52.mzXML
FILES
FaG-Derived
Serie_1_NEG_53.mzXML
FILES
FaG-Derived
Serie_1_NEG_54.mzXML
FILES
FaG-Derived
Serie_1_NEG_55.mzXML
FILES
FaG-Derived
Serie_1_NEG_56.mzXML
FILES
FaG-Derived
Serie_1_NEG_57.mzXML
FILES
FaG-Derived
Serie_1_NEG_58.mzXML
FILES
FaG-Derived
Serie_1_NEG_59.mzXML
FILES
FaG-Derived
Serie_1_NEG_6.mzXML
FILES
FaG-Derived
Serie_1_NEG_61.mzXML
FILES
FaG-Derived
Serie_1_NEG_62.mzXML
FILES
FaG-Derived
Serie_1_NEG_63.mzXML
FILES
FaG-Derived
Serie_1_NEG_64.mzXML
FILES
FaG-Derived
Serie_1_NEG_65.mzXML
FILES
FaG-Derived
Serie_1_NEG_66.mzXML
FILES
FaG-Derived
Serie_1_NEG_67.mzXML
FILES
FaG-Derived
Serie_1_NEG_68.mzXML
FILES
FaG-Derived
Serie_1_NEG_69.mzXML
FILES
FaG-Derived
Serie_1_NEG_7.mzXML
FILES
FaG-Derived
Serie_1_NEG_70.mzXML
FILES
FaG-Derived
Serie_1_NEG_71.mzXML
FILES
FaG-Derived
Serie_1_NEG_72.mzXML
FILES
FaG-Derived
Serie_1_NEG_73.mzXML
FILES
FaG-Derived
Serie_1_NEG_74.mzXML
FILES
FaG-Derived
Serie_1_NEG_75.mzXML
FILES
FaG-Derived
Serie_1_NEG_76.mzXML
FILES
FaG-Derived
Serie_1_NEG_77.mzXML
FILES
FaG-Derived
Serie_1_NEG_78.mzXML
FILES
FaG-Derived
Serie_1_NEG_79.mzXML
FILES
FaG-Derived
Serie_1_NEG_8.mzXML
FILES
FaG-Derived
Serie_1_NEG_80.mzXML
FILES
FaG-Derived
Serie_1_NEG_81.mzXML
FILES
FaG-Derived
Serie_1_NEG_82.mzXML
FILES
FaG-Derived
Serie_1_NEG_83.mzXML
FILES
FaG-Derived
Serie_1_NEG_84.mzXML
FILES
FaG-Derived
Serie_1_NEG_85.mzXML
FILES
FaG-Derived
Serie_1_NEG_86.mzXML
FILES
FaG-Derived
Serie_1_NEG_87.mzXML
FILES
FaG-Derived
Serie_1_NEG_88.mzXML
FILES
FaG-Derived
Serie_1_NEG_89.mzXML
FILES
FaG-Derived
Serie_1_NEG_9.mzXML
FILES
FaG-Derived
Serie_1_NEG_90.mzXML
FILES
FaG-Derived
Serie_1_NEG_91.mzXML
FILES
FaG-Derived
Serie_1_NEG_92.mzXML
FILES
FaG-Derived
Serie_1_NEG_93.mzXML
FILES
FaG-Derived
Serie_1_NEG_94.mzXML
FILES
FaG-Derived
Serie_1_NEG_95.mzXML
FILES
FaG-Derived
Serie_1_NEG_96.mzXML
FILES
FaG-Derived
Serie_1_NEG_97.mzXML
FILES
FaG-Derived
Serie_1_NEG_98.mzXML
FILES
FaG-Derived
Serie_1_NEG_99.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_1.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_10.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_11.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_12.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_13.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_14.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_15.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_16.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_17.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_18.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_19.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_2.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_20.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_3.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_4.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_5.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_6.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_7.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_8.mzXML
FILES
FaG-Derived
Serie_1_NEG_QC_9.mzXML
FILES
FaG-Derived
Serie_1_POS_1.mzXML
FILES
FaG-Derived
Serie_1_POS_10.mzXML
FILES
FaG-Derived
Serie_1_POS_100.mzXML
FILES
FaG-Derived
Serie_1_POS_101.mzXML
FILES
FaG-Derived
Serie_1_POS_102.mzXML
FILES
FaG-Derived
Serie_1_POS_103.mzXML
FILES
FaG-Derived
Serie_1_POS_104.mzXML
FILES
FaG-Derived
Serie_1_POS_105.mzXML
FILES
FaG-Derived
Serie_1_POS_106.mzXML
FILES
FaG-Derived
Serie_1_POS_107.mzXML
FILES
FaG-Derived
Serie_1_POS_108.mzXML
FILES
FaG-Derived
Serie_1_POS_109.mzXML
FILES
FaG-Derived
Serie_1_POS_11.mzXML
FILES
FaG-Derived
Serie_1_POS_110.mzXML
FILES
FaG-Derived
Serie_1_POS_111.mzXML
FILES
FaG-Derived
Serie_1_POS_112.mzXML
FILES
FaG-Derived
Serie_1_POS_113.mzXML
FILES
FaG-Derived
Serie_1_POS_114.mzXML
FILES
FaG-Derived
Serie_1_POS_115.mzXML
FILES
FaG-Derived
Serie_1_POS_116.mzXML
FILES
FaG-Derived
Serie_1_POS_117.mzXML
FILES
FaG-Derived
Serie_1_POS_118.mzXML
FILES
FaG-Derived
Serie_1_POS_119.mzXML
FILES
FaG-Derived
Serie_1_POS_12.mzXML
FILES
FaG-Derived
Serie_1_POS_120.mzXML
FILES
FaG-Derived
Serie_1_POS_121.mzXML
FILES
FaG-Derived
Serie_1_POS_122.mzXML
FILES
FaG-Derived
Serie_1_POS_123.mzXML
FILES
FaG-Derived
Serie_1_POS_124.mzXML
FILES
FaG-Derived
Serie_1_POS_125.mzXML
FILES
FaG-Derived
Serie_1_POS_126.mzXML
FILES
FaG-Derived
Serie_1_POS_127.mzXML
FILES
FaG-Derived
Serie_1_POS_128.mzXML
FILES
FaG-Derived
Serie_1_POS_129.mzXML
FILES
FaG-Derived
Serie_1_POS_13.mzXML
FILES
FaG-Derived
Serie_1_POS_130.mzXML
FILES
FaG-Derived
Serie_1_POS_131.mzXML
FILES
FaG-Derived
Serie_1_POS_132.mzXML
FILES
FaG-Derived
Serie_1_POS_133.mzXML
FILES
FaG-Derived
Serie_1_POS_134.mzXML
FILES
FaG-Derived
Serie_1_POS_135.mzXML
FILES
FaG-Derived
Serie_1_POS_136.mzXML
FILES
FaG-Derived
Serie_1_POS_137.mzXML
FILES
FaG-Derived
Serie_1_POS_138.mzXML
FILES
FaG-Derived
Serie_1_POS_139.mzXML
FILES
FaG-Derived
Serie_1_POS_14.mzXML
FILES
FaG-Derived
Serie_1_POS_140.mzXML
FILES
FaG-Derived
Serie_1_POS_141.mzXML
FILES
FaG-Derived
Serie_1_POS_142.mzXML
FILES
FaG-Derived
Serie_1_POS_143.mzXML
FILES
FaG-Derived
Serie_1_POS_144.mzXML
FILES
FaG-Derived
Serie_1_POS_145.mzXML
FILES
FaG-Derived
Serie_1_POS_146.mzXML
FILES
FaG-Derived
Serie_1_POS_147.mzXML
FILES
FaG-Derived
Serie_1_POS_148.mzXML
FILES
FaG-Derived
Serie_1_POS_149.mzXML
FILES
FaG-Derived
Serie_1_POS_15.mzXML
FILES
FaG-Derived
Serie_1_POS_150.mzXML
FILES
FaG-Derived
Serie_1_POS_152.mzXML
FILES
FaG-Derived
Serie_1_POS_153.mzXML
FILES
FaG-Derived
Serie_1_POS_154.mzXML
FILES
FaG-Derived
Serie_1_POS_155.mzXML
FILES
FaG-Derived
Serie_1_POS_156.mzXML
FILES
FaG-Derived
Serie_1_POS_157.mzXML
FILES
FaG-Derived
Serie_1_POS_16.mzXML
FILES
FaG-Derived
Serie_1_POS_17.mzXML
FILES
FaG-Derived
Serie_1_POS_18.mzXML
FILES
FaG-Derived
Serie_1_POS_19.mzXML
FILES
FaG-Derived
Serie_1_POS_2.mzXML
FILES
FaG-Derived
Serie_1_POS_20.mzXML
FILES
FaG-Derived
Serie_1_POS_21.mzXML
FILES
FaG-Derived
Serie_1_POS_22.mzXML
FILES
FaG-Derived
Serie_1_POS_23.mzXML
FILES
FaG-Derived
Serie_1_POS_24.mzXML
FILES
FaG-Derived
Serie_1_POS_25.mzXML
FILES
FaG-Derived
Serie_1_POS_26.mzXML
FILES
FaG-Derived
Serie_1_POS_27.mzXML
FILES
FaG-Derived
Serie_1_POS_28.mzXML
FILES
FaG-Derived
Serie_1_POS_29.mzXML
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FaG-Derived/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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FILES
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Serie_2_POS_QC_40.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Genetic Line
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
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IGNORED:  filename_lower
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 698 rows!
Added 698 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS152
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2974
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS154
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
  Thermo Scientific TSQ Vantage: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
mtab_tps6_filter_FT_241.RAW/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_control
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  keep
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IGNORED:  filename_lower
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IGNORED:  Assay_Label
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 64 rows!
Added 64 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2737
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS155
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Vantage: missing value
  Thermo Scientific LTQ FT Ultra: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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mtab_syn2_filter_FT_225.RAW/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 29%|██▊       | 479/1674 [57:19<1:36:58,  4.87s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_control
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_time
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 90 rows!
Added 90 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2130
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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031_20_C5.d/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 5
Returning 348 rows!
Added 348 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2131
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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FILES
190129055.raw
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17414_Microsomes.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 53 rows!
Added 53 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10304
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS304
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1559
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6220 Accurate-Mass TOF: missing value
  Agilent 6230 Accurate-Mass TOF: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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Strains/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Ammonium Chloride
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
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IGNORED:  Samples_Unit.1
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Term Source REF
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IGNORED:  Is Descendant
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IGNORED:  Samples_Active/Inactive Rv3722c
IGNORED:  Assay_Extract Name
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IGNORED:  filepath
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IGNORED:  Assay_Label
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IGNORED:  Assay_Autosampler model
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Number of rows removed due to not enough metadata: 36
Returning 318 rows!
Added 318 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1579
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS274
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10408
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent QTOF 6545: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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KO_iWAT_ 2.d/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 29%|██▉       | 487/1674 [58:07<1:35:00,  4.80s/it]
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Tissue
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 78 rows!
Added 78 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10418
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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  Waters Xevo TQXS: missing value
UBERONBodyPartName:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 33
Returning 287 rows!
Added 287 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2744
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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Matrix_blank_5.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 89 rows!
Added 89 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS307
Request successful!
SampleCollectionMethod: ADDED!
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Urine_87_Top10_posneg_neg.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 29%|██▉       | 490/1674 [58:39<2:45:16,  8.38s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 29%|██▉       | 491/1674 [58:46<2:32:54,  7.76s/it]
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Urine_87_Top10_posneg_pos.mzXML
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Number of rows removed due to not enough metadata: 3
Returning 128 rows!
Added 128 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS309
Request successful!
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Number of rows removed due to not enough metadata: 0
Returning 94 rows!
Added 94 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1610
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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IonizationSourceAndPolarity:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Sampling date
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
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IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Overlaying substrate
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
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IGNORED:  Assay_Normalization Name
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IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Term Accession Number.7
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IGNORED:  filename_lower
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IGNORED:  Samples_Term Accession Number.8/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 29%|██▉       | 492/1674 [59:02<3:23:07, 10.31s/it]
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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Number of rows removed due to not enough metadata: 530
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2746
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Focus: missing value
  Thermo Scientific Orbitrap ID-X Tribrid: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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QC_cell_10.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_11.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_12.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_13_MSMS.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_14_MSMS.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_15_MSMS.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_2.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_3.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_4.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_5.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_6.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_7.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_8.mzML
FILES
cardiomyocytes
HILIC_negative
QC_cell_9.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_1.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_10.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_11.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_12.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_13.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_14.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_15.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_16_MSMS_70_200.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_17_MSMS_200_400.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_18_MSMS_400_1000.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_2.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_3.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_4.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_5.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_6.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_7.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_8.mzML
FILES
cardiomyocytes
HILIC_negative
QC_media_9.mzML
FILES
cardiomyocytes
HILIC_negative
blank_cell_end.mzML
FILES
cardiomyocytes
HILIC_negative
blank_cell_start.mzML
FILES
cardiomyocytes
HILIC_negative
blank_media_end.mzML
FILES
cardiomyocytes
HILIC_negative
blank_media_start.mzML
FILES
cardiomyocytes
HILIC_positive
AZ1.mzML
FILES
cardiomyocytes
HILIC_positive
AZ10.mzML
FILES
cardiomyocytes
HILIC_positive
AZ11.mzML
FILES
cardiomyocytes
HILIC_positive
AZ12.mzML
FILES
cardiomyocytes
HILIC_positive
AZ13.mzML
FILES
cardiomyocytes
HILIC_positive
AZ14.mzML
FILES
cardiomyocytes
HILIC_positive
AZ15.mzML
FILES
cardiomyocytes
HILIC_positive
AZ16.mzML
FILES
cardiomyocytes
HILIC_positive
AZ17.mzML
FILES
cardiomyocytes
HILIC_positive
AZ18.mzML
FILES
cardiomyocytes
HILIC_positive
AZ2.mzML
FILES
cardiomyocytes
HILIC_positive
AZ3.mzML
FILES
cardiomyocytes
HILIC_positive
AZ4.mzML
FILES
cardiomyocytes
HILIC_positive
AZ5.mzML
FILES
cardiomyocytes
HILIC_positive
AZ6.mzML
FILES
cardiomyocytes
HILIC_positive
AZ7.mzML
FILES
cardiomyocytes
HILIC_positive
AZ8.mzML
FILES
cardiomyocytes
HILIC_positive
AZ9.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M1.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M10.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M11.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M12.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M13.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M14.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M15.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M16.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M17.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M18.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M2.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M3.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M4.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M5.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M6.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M7.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M8.mzML
FILES
cardiomyocytes
HILIC_positive
AZ_M9.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_1.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_10.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_11.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_12.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_13_MSMS.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_14_MSMS.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_15_MSMS.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_2.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_3.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_4.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_5.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_6.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_7.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_8.mzML
FILES
cardiomyocytes
HILIC_positive
QC_cell_9.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_1.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_10.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_11.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_12.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_13.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_14.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_15.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_16_MSMS_70_200.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_17_MSMS_200_400.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_18_MSMS_400_1000.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_2.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_3.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_4.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_5.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_6.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_7.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_8.mzML
FILES
cardiomyocytes
HILIC_positive
QC_media_9.mzML
FILES
cardiomyocytes
HILIC_positive
blank_cell_end.mzML
FILES
cardiomyocytes
HILIC_positive
blank_cell_start.mzML
FILES
cardiomyocytes
HILIC_positive
blank_media_end.mzML
FILES
cardiomyocytes
HILIC_positive
blank_media_start.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ1.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ10.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ11.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ12.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ13.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ14.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ15.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ16.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ17.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ18.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ2.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ3.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ4.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ5.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ6.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ7.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ8.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ9.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M1.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M10.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M11.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M12.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M13.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M14.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M15.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M16.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M17.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M18.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M2.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M3.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M4.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M5.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M6.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M7.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M8.mzML
FILES
cardiomyocytes
RP_C18_negative
AZ_M9.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_1.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_10.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_11.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_12.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_13_MSMS.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_14_MSMS.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_15_MSMS.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_2.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_3.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_4.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_5.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_6.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_7.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_8.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_cell_9.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_1.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_10.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_11.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_12.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_13.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_14.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_15.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_16_MSMS_70_200.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_17_MSMS_200_400.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_18_MSMS_400_1000.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_2.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_3.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_4.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_5.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_6.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_7.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_8.mzML
FILES
cardiomyocytes
RP_C18_negative
QC_media_9.mzML
FILES
cardiomyocytes
RP_C18_negative
blank_cell_end.mzML
FILES
cardiomyocytes
RP_C18_negative
blank_cell_start.mzML
FILES
cardiomyocytes
RP_C18_negative
blank_media_end.mzML
FILES
cardiomyocytes
RP_C18_negative
blank_media_start.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ1.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ10.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ11.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ12.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ13.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ14.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ15.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ16.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ17.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ18.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ2.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ3.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ4.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ5.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ6.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ7.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ8.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ9.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M1.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M10.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M11.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M12.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M13.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M14.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M15.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M16.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M17.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M18.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M2.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M3.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M4.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M5.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M6.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M7.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M8.mzML
FILES
cardiomyocytes
RP_C18_positive
AZ_M9.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_1.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_10.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_11.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_12.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_13_MSMS.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_14_MSMS.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_15_MSMS.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_2.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_3.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_4.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_5.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_6.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_7.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_8.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_cell_9.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_1.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_10.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_11.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_12.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_13.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_14.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_15.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_16_MSMS_200_400.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_17_MSMS_400_700.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_18_MSMS_700_1500.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_2.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_3.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_4.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_5.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_6.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_7.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_8.mzML
FILES
cardiomyocytes
RP_C18_positive
QC_media_9.mzML
FILES
cardiomyocytes
RP_C18_positive
blank_cell_end.mzML
FILES
cardiomyocytes
RP_C18_positive
blank_cell_start.mzML
FILES
cardiomyocytes
RP_C18_positive
blank_media_end.mzML
FILES
cardiomyocytes
RP_C18_positive
blank_media_start.mzML
FILES
human_plasma
HILIC_positive
QC01.mzML
FILES
human_plasma
HILIC_positive
QC02.mzML
FILES
human_plasma
HILIC_positive
QC03.mzML
FILES
human_plasma
HILIC_positive
QC04.mzML
FILES
human_plasma
HILIC_positive
QC05.mzML
FILES
human_plasma
HILIC_positive
QC06.mzML
FILES
human_plasma
HILIC_positive
QC07.mzML
FILES
human_plasma
HILIC_positive
QC08.mzML
FILES
human_plasma
HILIC_positive
QC09.mzML
FILES
human_plasma
HILIC_positive
QC10.mzML
FILES
human_plasma
HILIC_positive
QC11.mzML
FILES
human_plasma
HILIC_positive
QC12.mzML
FILES
human_plasma
HILIC_positive
QC13.mzML
FILES
human_plasma
HILIC_positive
QC14.mzML
FILES
human_plasma
HILIC_positive
S01.mzML
FILES
human_plasma
HILIC_positive
S02.mzML
FILES
human_plasma
HILIC_positive
S03.mzML
FILES
human_plasma
HILIC_positive
S04.mzML
FILES
human_plasma
HILIC_positive
S05.mzML
FILES
human_plasma
HILIC_positive
S06.mzML
FILES
human_plasma
HILIC_positive
S07.mzML
FILES
human_plasma
HILIC_positive
S08.mzML
FILES
human_plasma
HILIC_positive
S09.mzML
FILES
human_plasma
HILIC_positive
S10.mzML
FILES
human_plasma
HILIC_positive
S11.mzML
FILES
human_plasma
HILIC_positive
S12.mzML
FILES
human_plasma
HILIC_positive
S13.mzML
FILES
human_plasma
HILIC_positive
S14.mzML
FILES
human_plasma
HILIC_positive
S15.mzML
FILES
human_plasma
HILIC_positive
S16.mzML
FILES
human_plasma
HILIC_positive
S17.mzML
FILES
human_plasma
HILIC_positive
S18.mzML
FILES
human_plasma
HILIC_positive
S19.mzML
FILES
human_plasma
HILIC_positive
S20.mzML
FILES
human_plasma
HILIC_positive
S21.mzML
FILES
human_plasma
HILIC_positive
acetaminophen_MI-T.mzML
FILES
human_plasma
HILIC_positive
acetaminophen_MI-T_MSMS.mzML
FILES
human_plasma
HILIC_positive
amitriptyline_MI-T.mzML
FILES
human_plasma
HILIC_positive
amitriptyline_MI-T_MSMS.mzML
FILES
human_plasma
HILIC_positive
citalopram_MI-T.mzML
FILES
human_plasma
HILIC_positive
citalopram_MI-T_MSMS.mzML
FILES
human_plasma
HILIC_positive
desogestrel_MI-T.mzML
FILES
human_plasma
HILIC_positive
desogestrel_MI-T_MSMS.mzML
FILES
human_plasma
HILIC_positive
extract_blank_end.mzML
FILES
human_plasma
HILIC_positive
extract_blank_start.mzML
FILES
human_plasma
HILIC_positive
lansoprazole_MI-T.mzML
FILES
human_plasma
HILIC_positive
lansoprazole_MI-T_MSMS.mzML
FILES
human_plasma
HILIC_positive
ramipril_MI-T.mzML
FILES
human_plasma
HILIC_positive
ramipril_MI-T_MSMS.mzML
FILES
human_plasma
HILIC_positive
salbutamol_MI-T.mzML
FILES
human_plasma
HILIC_positive
salbutamol_MI-T_MSMS.mzML
FILES
rat_cardiac_tissue
HILIC_negative
26.mzML
FILES
rat_cardiac_tissue
HILIC_negative
27.mzML
FILES
rat_cardiac_tissue
HILIC_negative
28.mzML
FILES
rat_cardiac_tissue
HILIC_negative
29.mzML
FILES
rat_cardiac_tissue
HILIC_negative
30.mzML
FILES
rat_cardiac_tissue
HILIC_negative
31.mzML
FILES
rat_cardiac_tissue
HILIC_negative
32.mzML
FILES
rat_cardiac_tissue
HILIC_negative
32_AZ_Heart_HILIC_NEG_1.mzML
FILES
rat_cardiac_tissue
HILIC_negative
32_AZ_Heart_HILIC_NEG_2.mzML
FILES
rat_cardiac_tissue
HILIC_negative
32_AZ_Heart_HILIC_NEG_3.mzML
FILES
rat_cardiac_tissue
HILIC_negative
33.mzML
FILES
rat_cardiac_tissue
HILIC_negative
33_AZ_Heart_HILIC_NEG_1.mzML
FILES
rat_cardiac_tissue
HILIC_negative
33_AZ_Heart_HILIC_NEG_2.mzML
FILES
rat_cardiac_tissue
HILIC_negative
33_AZ_Heart_HILIC_NEG_3.mzML
FILES
rat_cardiac_tissue
HILIC_negative
34.mzML
FILES
rat_cardiac_tissue
HILIC_negative
34_AZ_Heart_HILIC_NEG_1.mzML
FILES
rat_cardiac_tissue
HILIC_negative
34_AZ_Heart_HILIC_NEG_2.mzML
FILES
rat_cardiac_tissue
HILIC_negative
34_AZ_Heart_HILIC_NEG_3.mzML
FILES
rat_cardiac_tissue
HILIC_negative
35.mzML
FILES
rat_cardiac_tissue
HILIC_negative
61.mzML
FILES
rat_cardiac_tissue
HILIC_negative
62.mzML
FILES
rat_cardiac_tissue
HILIC_negative
63.mzML
FILES
rat_cardiac_tissue
HILIC_negative
64.mzML
FILES
rat_cardiac_tissue
HILIC_negative
65.mzML
FILES
rat_cardiac_tissue
HILIC_negative
66.mzML
FILES
rat_cardiac_tissue
HILIC_negative
67.mzML
FILES
rat_cardiac_tissue
HILIC_negative
67_SUN_Heart_HILIC_NEG_1.mzML
FILES
rat_cardiac_tissue
HILIC_negative
67_SUN_Heart_HILIC_NEG_2.mzML
FILES
rat_cardiac_tissue
HILIC_negative
68.mzML
FILES
rat_cardiac_tissue
HILIC_negative
68_SUN_Heart_HILIC_NEG_1.mzML
FILES
rat_cardiac_tissue
HILIC_negative
68_SUN_Heart_HILIC_NEG_2.mzML
FILES
rat_cardiac_tissue
HILIC_negative
69.mzML
FILES
rat_cardiac_tissue
HILIC_negative
70.mzML
FILES
rat_cardiac_tissue
HILIC_negative
70_SUN_Heart_HILIC_NEG_1.mzML
FILES
rat_cardiac_tissue
HILIC_negative
70_SUN_Heart_HILIC_NEG_2.mzML
FILES
rat_cardiac_tissue
HILIC_negative
AZ_compound_MSMS_neg.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC1.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC10.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC11.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC12.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC13.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC14.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC15.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC16.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC2.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC3.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC4.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC5.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC9.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC_6_MSMS_70_200_HIL_NEG.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC_7_MSMS_200_400_HIL_NEG.mzML
FILES
rat_cardiac_tissue
HILIC_negative
QC_8_MSMS_400_1000_HIL_NEG.mzML
FILES
rat_cardiac_tissue
HILIC_negative
Sunitinib_new_MSMS_neg.mzML
FILES
rat_cardiac_tissue
HILIC_negative
extract_blank_end.mzML
FILES
rat_cardiac_tissue
HILIC_negative
extract_blank_start.mzML
FILES
rat_cardiac_tissue
HILIC_positive
26.mzML
FILES
rat_cardiac_tissue
HILIC_positive
27.mzML
FILES
rat_cardiac_tissue
HILIC_positive
28.mzML
FILES
rat_cardiac_tissue
HILIC_positive
29.mzML
FILES
rat_cardiac_tissue
HILIC_positive
30.mzML
FILES
rat_cardiac_tissue
HILIC_positive
31.mzML
FILES
rat_cardiac_tissue
HILIC_positive
32.mzML
FILES
rat_cardiac_tissue
HILIC_positive
32_AZ_Heart_HILIC_POS_1.mzML
FILES
rat_cardiac_tissue
HILIC_positive
32_AZ_Heart_HILIC_POS_2.mzML
FILES
rat_cardiac_tissue
HILIC_positive
32_AZ_Heart_HILIC_POS_3.mzML
FILES
rat_cardiac_tissue
HILIC_positive
33.mzML
FILES
rat_cardiac_tissue
HILIC_positive
33_AZ_Heart_HILIC_POS_1.mzML
FILES
rat_cardiac_tissue
HILIC_positive
33_AZ_Heart_HILIC_POS_2.mzML
FILES
rat_cardiac_tissue
HILIC_positive
33_AZ_Heart_HILIC_POS_3.mzML
FILES
rat_cardiac_tissue
HILIC_positive
34.mzML
FILES
rat_cardiac_tissue
HILIC_positive
34_AZ_Heart_HILIC_POS_1.mzML
FILES
rat_cardiac_tissue
HILIC_positive
34_AZ_Heart_HILIC_POS_2.mzML
FILES
rat_cardiac_tissue
HILIC_positive
34_AZ_Heart_HILIC_POS_3.mzML
FILES
rat_cardiac_tissue
HILIC_positive
35.mzML
FILES
rat_cardiac_tissue
HILIC_positive
61.mzML
FILES
rat_cardiac_tissue
HILIC_positive
62.mzML
FILES
rat_cardiac_tissue
HILIC_positive
63.mzML
FILES
rat_cardiac_tissue
HILIC_positive
64.mzML
FILES
rat_cardiac_tissue
HILIC_positive
65.mzML
FILES
rat_cardiac_tissue
HILIC_positive
66.mzML
FILES
rat_cardiac_tissue
HILIC_positive
67.mzML
FILES
rat_cardiac_tissue
HILIC_positive
67_SUN_Heart_HILIC_POS_1.mzML
FILES
rat_cardiac_tissue
HILIC_positive
67_SUN_Heart_HILIC_POS_2.mzML
FILES
rat_cardiac_tissue
HILIC_positive
67_SUN_Heart_HILIC_POS_3.mzML
FILES
rat_cardiac_tissue
HILIC_positive
68.mzML
FILES
rat_cardiac_tissue
HILIC_positive
68_SUN_Heart_HILIC_POS_1.mzML
FILES
rat_cardiac_tissue
HILIC_positive
68_SUN_Heart_HILIC_POS_2.mzML
FILES
rat_cardiac_tissue
HILIC_positive
68_SUN_Heart_HILIC_POS_3.mzML
FILES
rat_cardiac_tissue
HILIC_positive
69.mzML
FILES
rat_cardiac_tissue
HILIC_positive
70.mzML
FILES
rat_cardiac_tissue
HILIC_positive
70_SUN_Heart_HILIC_POS_1.mzML
FILES
rat_cardiac_tissue
HILIC_positive
70_SUN_Heart_HILIC_POS_2.mzML
FILES
rat_cardiac_tissue
HILIC_positive
70_SUN_Heart_HILIC_POS_3.mzML
FILES
rat_cardiac_tissue
HILIC_positive
AZ_compound_MSMS_POS.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC1.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC10.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC11.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC12.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC13.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC14.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC15.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC16.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC2.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC3.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC4.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC5.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC9.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC_6_MSMS_70_200_HIL_POS.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC_7_MSMS_200_400_HIL_POS.mzML
FILES
rat_cardiac_tissue
HILIC_positive
QC_8_MSMS_400_1000_HIL_POS.mzML
FILES
rat_cardiac_tissue
HILIC_positive
Sunitinib_new_MSMS_POS.mzML
FILES
rat_cardiac_tissue
HILIC_positive
extract_blank_end.mzML
FILES
rat_cardiac_tissue
HILIC_positive
extract_blank_start.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
26.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
27.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
28.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
29.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
30.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
31.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
32.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
32_AZ_Heart_LIPIDS_NEG_1.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
32_AZ_Heart_LIPIDS_NEG_2.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
33.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
33_AZ_Heart_LIPIDS_NEG_1.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
33_AZ_Heart_LIPIDS_NEG_2.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
34.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
34_AZ_Heart_LIPIDS_NEG_1.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
34_AZ_Heart_LIPIDS_NEG_2.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
35.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
61.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
62.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
63.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
64.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
65.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
66.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
67.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
67_SUN_Heart_LIPIDS_NEG_1.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
67_SUN_Heart_LIPIDS_NEG_2.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
68.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
68_SUN_Heart_LIPIDS_NEG_1.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
68_SUN_Heart_LIPIDS_NEG_2.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
69.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
70.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
70_SUN_Heart_LIPIDS_NEG_1.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
70_SUN_Heart_LIPIDS_NEG_2.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
AZ_compound_MSMS_neg.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC01.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC02.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC03.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC04.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC05.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC06_MSMS_200_400.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC07_MSMS_400_700.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC08_MSMS_700_1500.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC09.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC10.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC11.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC12.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC13.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC14.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC15.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
QC16.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
Sunitinib_new_MSMS_neg.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
extract_blank_end.mzML
FILES
rat_cardiac_tissue
RP_C18_negative
extract_blank_start.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
26.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
27.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
28.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
29.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
30.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
31.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
32.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
32_AZ_Heart_LIPIDS_POS_1.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
32_AZ_Heart_LIPIDS_POS_2.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
32_AZ_Heart_LIPIDS_POS_3.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
32_AZ_Heart_LIPIDS_POS_4.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
32_AZ_Heart_LIPIDS_POS_5.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
33.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
33_AZ_Heart_LIPIDS_POS_1.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
33_AZ_Heart_LIPIDS_POS_2.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
33_AZ_Heart_LIPIDS_POS_3.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
33_AZ_Heart_LIPIDS_POS_4.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
33_AZ_Heart_LIPIDS_POS_5.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
34.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
34_AZ_Heart_LIPIDS_POS_1.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
34_AZ_Heart_LIPIDS_POS_2.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
34_AZ_Heart_LIPIDS_POS_3.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
34_AZ_Heart_LIPIDS_POS_4.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
34_AZ_Heart_LIPIDS_POS_5.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
35.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
61.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
62.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
63.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
64.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
65.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
66.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
67.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
67_SUN_Heart_LIPIDS_POS_1.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
67_SUN_Heart_LIPIDS_POS_2.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
67_SUN_Heart_LIPIDS_POS_3.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
68.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
68_SUN_Heart_LIPIDS_POS_1.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
68_SUN_Heart_LIPIDS_POS_2.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
68_SUN_Heart_LIPIDS_POS_3.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
69.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
70.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
70_SUN_Heart_LIPIDS_POS_1.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
70_SUN_Heart_LIPIDS_POS_2.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
70_SUN_Heart_LIPIDS_POS_3.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
AZ_compound_MSMS_POS.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC01.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC02.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC03.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC04.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC05.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC06_MSMS_200_400.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC07_MSMS_400_700.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC08_MSMS_700_1500.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC09.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC10.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC11.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC12.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC13.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC14.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC15.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
QC16.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
Sunitinib_new_MSMS_POS.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
extract_blank_end.mzML
FILES
rat_cardiac_tissue
RP_C18_positive
extract_blank_start.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_02.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_04.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_05.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_06.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_07.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_08.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_10.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_11.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_12.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_13.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_14.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_16.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_17.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_19.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_21.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_22.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_24.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_26.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_27.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_28.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_29.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_30.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_32.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_34.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_36.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_37.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_38.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_38_AZ_Serum_HILIC_NEG_1.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_38_AZ_Serum_HILIC_NEG_2.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_39.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_41.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_43.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_46.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_47.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_48.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_48_AZ_Serum_HILIC_NEG_1.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_48_AZ_Serum_HILIC_NEG_2.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_50.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_52.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_53.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_54.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_56.mzML
FILES
rat_plasma_KU60648
HILIC_negative
AZ_58.mzML
FILES
rat_plasma_KU60648
HILIC_negative
Extract_blank_end.mzML
FILES
rat_plasma_KU60648
HILIC_negative
Extract_blank_start.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC01.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC02.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC03.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC04.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC05.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC06_MSMS_70_200_HIL_POS.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC07_MSMS_200_400.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC08_MSMS_400_1000_HIL_POS.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC09.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC10.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC11.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC12.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC13.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC14.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC15.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC16.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC17.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC18.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC19.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC20.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC21.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC22.mzML
FILES
rat_plasma_KU60648
HILIC_negative
QC23.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_02.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_04.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_05.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_06.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_07.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_08.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_10.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_11.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_12.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_13.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_14.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_14_AZ_Serum_HILIC_POS_1.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_14_AZ_Serum_HILIC_POS_2.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_14_AZ_Serum_HILIC_POS_3.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_16.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_17.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_19.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_21.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_22.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_24.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_26.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_27.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_28.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_29.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_30.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_32.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_34.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_36.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_37.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_38.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_38_AZ_Serum_HILIC_POS_1.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_38_AZ_Serum_HILIC_POS_2.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_38_AZ_Serum_HILIC_POS_3.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_39.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_41.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_43.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_46.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_47.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_48.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_48_AZ_Serum_HILIC_POS_1.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_48_AZ_Serum_HILIC_POS_2.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_48_AZ_Serum_HILIC_POS_3.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_50.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_52.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_53.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_54.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_56.mzML
FILES
rat_plasma_KU60648
HILIC_positive
AZ_58.mzML
FILES
rat_plasma_KU60648
HILIC_positive
Extract_blank_end.mzML
FILES
rat_plasma_KU60648
HILIC_positive
Extract_blank_start.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC01.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC02.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC03.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC04.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC05.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC06_MSMS_70_200_HIL_POS.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC07_MSMS_200_400.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC08_MSMS_400_1000_HIL_POS.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC09.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC10.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC11.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC12.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC13.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC14.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC15.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC16.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC17.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC18.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC19.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC20.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC21.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC22.mzML
FILES
rat_plasma_KU60648
HILIC_positive
QC23.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_02.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_04.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_05.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_06.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_07.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_08.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_10.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_11.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_12.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_13.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_14.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_14_AZ_Serum_LIPIDS_NEG_1.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_16.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_17.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_19.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_21.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_22.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_24.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_26.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_27.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_28.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_29.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_30.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_32.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_34.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_36.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_37.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_38.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_38_AZ_Serum_LIPIDS_NEG_1.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_39.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_41.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_43.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_46.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_47.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_48.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_48_AZ_Serum_LIPIDS_NEG_1.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_50.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_52.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_53.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_54.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_56.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
AZ_58.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
Extract_blank_end.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
Extract_blank_start.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC01.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC02.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC03.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC04.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC05.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC06_MSMS_200_400.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC07_MSMS_400_700.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC08_MSMS_700_1500.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC09.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC10.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC11.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC12.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC13.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC14.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC15.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC16.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC17.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC18.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC19.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC20.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC21.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC22.mzML
FILES
rat_plasma_KU60648
RP_C18_negative
QC23.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_02.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_04.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_05.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_06.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_07.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_08.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_10.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_11.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_12.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_13.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_14.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_14_AZ_Serum_LIPIDS_POS_1.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_14_AZ_Serum_LIPIDS_POS_2.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_14_AZ_Serum_LIPIDS_POS_3.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_16.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_17.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_19.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_21.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_22.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_24.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_26.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_27.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_28.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_29.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_30.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_32.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_34.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_36.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_37.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_38.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_38_AZ_Serum_LIPIDS_POS_1.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_38_AZ_Serum_LIPIDS_POS_2.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_38_AZ_Serum_LIPIDS_POS_3.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_39.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_41.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_43.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_46.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_47.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_48.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_48_AZ_Serum_LIPIDS_POS_1.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_48_AZ_Serum_LIPIDS_POS_2.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_48_AZ_Serum_LIPIDS_POS_3.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_50.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_52.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_53.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_54.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_56.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
AZ_58.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
Extract_blank_end.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
Extract_blank_start.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC01.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC02.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC03.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC04.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC05.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC06_MSMS_200_400.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC07_MSMS_400_700.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC08_MSMS_700_1500.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC09.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC10.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC11.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC12.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC13.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC14.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC15.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC16.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC17.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC18.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC19.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC20.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC21.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC22.mzML
FILES
rat_plasma_KU60648
RP_C18_positive
QC23.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_100.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_101.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_102.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_103.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_104.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_106.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_107.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_108.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_109.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_110.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_111.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_112.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_113.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_114.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_115.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_116.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_117.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_119.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_120.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_120_SUN_Serum_HILIC_NEG_1.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_121.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_124.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_126.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_129.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_130.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_132.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_133.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_134.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_135.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_136.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_137.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_138.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_61.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_62.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_66.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_69.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_70.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_71.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_72.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_74.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_75.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_76.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_77.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_78.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_79.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_80.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_81.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_82.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_83.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_84.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_85.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_86.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_87.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_89.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_90.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_91.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_91_SUN_Serum_HILIC_NEG_1.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_94.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_95.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_97.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
AZ_99.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
Extract_blank_end.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
Extract_blank_start.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC01.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC02.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC03.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC04.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC05.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC06_MSMS_70_200.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC07_MSMS_200_400.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC08_MSMS_400_1000.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC09.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC10.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC11.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC12.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC13.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC14.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC15.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC16.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC17.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC18.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC19.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC20.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC21.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC22.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC23.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC24.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC25.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC26.mzML
FILES
rat_plasma_sunitinib
HILIC_negative
QC27.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_100.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_101.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_102.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_103.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_104.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_106.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_107.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_108.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_109.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_110.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_111.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_112.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_113.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_114.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_115.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_116.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_117.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_119.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_120.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_120_SUN_Serum_HILIC_POS_1.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_120_SUN_Serum_HILIC_POS_2.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_121.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_124.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_126.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_129.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_130.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_132.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_133.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_134.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_135.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_136.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_137.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_138.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_61.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_62.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_66.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_69.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_70.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_71.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_72.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_74.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_75.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_76.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_77.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_78.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_79.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_80.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_81.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_82.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_83.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_84.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_85.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_86.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_87.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_89.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_90.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_91.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_91_SUN_Serum_HILIC_POS_1.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_91_SUN_Serum_HILIC_POS_2.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_94.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_95.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_97.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
AZ_99.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
Extract_blank_end.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
Extract_blank_start.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC01.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC02.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC03.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC04.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC05.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC06_MSMS_70_200.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC07_MSMS_200_400.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC08_MSMS_400_1000.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC09.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC10.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC11.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC12.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC13.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC14.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC15.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC16.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC17.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC18.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC19.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC20.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC21.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC22.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC23.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC24.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC25.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC26.mzML
FILES
rat_plasma_sunitinib
HILIC_positive
QC27.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_100.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_101.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_102.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_103.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_104.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_106.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_107.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_108.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_109.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_110.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_111.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_112.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_113.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_114.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_115.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_116.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_117.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_119.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_120.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_120_SUN_Serum_LIPIDS_NEG_1.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_121.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_124.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_126.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_129.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_130.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_132.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_133.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_134.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_135.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_136.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_137.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_138.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_61.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_62.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_66.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_69.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_70.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_71.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_72.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_74.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_75.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_76.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_77.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_78.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_79.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_80.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_81.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_82.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_83.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_84.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_85.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_85_SUN_Serum_LIPIDS_NEG_1.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_86.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_87.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_89.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_90.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_91.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_91_SUN_Serum_LIPIDS_NEG_1.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_94.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_95.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_97.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
AZ_99.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
Extract_blank_end.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
Extract_blank_start.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC01.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC02.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC03.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC04.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC05.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC06_MSMS_200_400.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC07_MSMS_400_700.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC08_MSMS_700_1500.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC09.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC10.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC11.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC12.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC13.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC14.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC15.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC16.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC17.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC18.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC19.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC20.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC21.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC22.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC23.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC24.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC25.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC26.mzML
FILES
rat_plasma_sunitinib
RP_C18_negative
QC27.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_100.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_101.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_102.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_103.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_104.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_106.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_107.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_108.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_109.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_110.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_111.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_112.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_113.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_114.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_115.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_116.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_117.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_119.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_120.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_120_SUN_Serum_LIPIDS_POS_1.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_121.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_124.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_126.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_129.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_130.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_132.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_133.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_134.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_135.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_136.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_137.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_138.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_61.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_62.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_66.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_69.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_70.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_71.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_72.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_74.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_75.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_76.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_77.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_78.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_79.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_80.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_81.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_82.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_83.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_84.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_85.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_85_SUN_Serum_LIPIDS_POS_1.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_86.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_87.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_89.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_90.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_91.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_91_SUN_Serum_LIPIDS_POS_1.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_94.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_95.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_97.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
AZ_99.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
Extract_blank_end.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 29%|██▉       | 493/1674 [59:32<5:21:08, 16.32s/it]
FILES
rat_plasma_sunitinib
RP_C18_positive
Extract_blank_start.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC01.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC02.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC03.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC04.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC05.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC06_MSMS_200_400.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC07_MSMS_400_700.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC08_MSMS_700_1500.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC09.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC10.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC11.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC12.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC13.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC14.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC15.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC16.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC17.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC18.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC19.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC20.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC21.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC22.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC23.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC24.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC25.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC26.mzML
FILES
rat_plasma_sunitinib
RP_C18_positive
QC27.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Subject ID
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Dataset
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 8
Returning 1209 rows!
Added 1209 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS311
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ 8000: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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3DC153.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 30%|██▉       | 494/1674 [59:42<4:42:36, 14.37s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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3LT604.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Term Accession Number.7
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IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
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IGNORED:  Samples_Bicarbonate treatment
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Samples_Light condition
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Bicarbonate concentration
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 277 rows!
Added 277 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10592
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo UHPLC-Q Exactive HF-X  Mass Spectrometer: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS312
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10647
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 30%|██▉       | 497/1674 [59:55<2:36:41,  7.99s/it]
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Agilent 6550 Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
BOSq_Everts_LUMC_hCells_071520_P2-A1_1_A01_NEG.d
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 22 rows!
Added 22 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2166
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Time point
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 30%|██▉       | 498/1674 [1:00:03<2:37:29,  8.04s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 30%|██▉       | 499/1674 [1:00:10<2:26:59,  7.51s/it]
 30%|██▉       | 500/1674 [1:00:11<1:51:29,  5.70s/it]
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS316
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20101205_01_2G_1_pos_35.mzML
FILES
20101205_01_neg_04.mzML
FILES
20101205_02_2G_2_pos_36.mzML
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20101205_02_neg_05.mzML
FILES
20101205_03_2G_3_pos_37.mzML
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20101205_04_04G_1_pos_38.mzML
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FILES
20101205_05_neg_08.mzML
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20101205_06_04G_3_pos_40.mzML
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20101205_07_neg_10.mzML
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FILES
20101205_09_03G_3_pos_43.mzML
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20101205_09_neg_12.mzML
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20101205_10_02G_1_pos_44.mzML
FILES
20101205_10_neg_13.mzML
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
20101205_19_004G_1_pos_53.mzML
FILES
20101205_19_neg_22.mzML
FILES
20101205_20_004G_2_pos_54.mzML
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20101205_20_neg_23.mzML
FILES
20101205_21_004G_3_pos_55.mzML
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FILES
20101205_23_003G_2_pos_57.mzML
FILES
20101205_23_neg_26.mzML
FILES
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FILES
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FILES
20101205_27_002G_3_pos_61.mzML
FILES
20101205_27_neg_30.mzML
FILES
20101205_28_0G_1_pos_62.mzML
FILES
20101205_28_neg_31.mzML
FILES
20101205_29_0G_2_pos_63.mzML
FILES
20101205_29_neg_32.mzML
FILES
20101205_30_0G_3_pos_64.mzML
FILES
20101205_30_neg_33.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  keep
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_glucose
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10673
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10682
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX Triple Quad 6500: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
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LC-1_P.mzML
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LC-2_N.mzML
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LW-1-1_N.mzML
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DERIVED_FILES
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LW-1-2_P.mzML
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LW-1-3_N.mzML
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LW-1-3_P.mzML
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NJ-1_P.mzML
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NJ-3_N.mzML
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DERIVED_FILES
TC-2-1_N.mzML
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DERIVED_FILES
TC-2-1_P.mzML
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TC-2-2_N.mzML
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TC-2-2_P.mzML
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DERIVED_FILES
TC-2-3_N.mzML
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TC-2-3_P.mzML
FILES
DERIVED_FILES
WS-1_N.mzML
FILES
DERIVED_FILES
WS-1_P.mzML
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DERIVED_FILES
WS-2_N.mzML
FILES
DERIVED_FILES
WS-2_P.mzML
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DERIVED_FILES
WS-3_N.mzML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Source Name
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Group
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 30%|██▉       | 501/1674 [1:00:17<1:54:04,  5.84s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 30%|██▉       | 502/1674 [1:00:23<1:51:58,  5.73s/it]
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10741
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
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IGNORED:  keep
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10762
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
10d-1_N.mzML
FILES
DERIVED_FILES
10d-1_P.mzML
FILES
DERIVED_FILES
10d-2_N.mzML
FILES
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10d-2_P.mzML
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10d-3_N.mzML
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10d-3_P.mzML
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13d-1_N.mzML
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FILES
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13d-2_P.mzML
FILES
DERIVED_FILES
13d-3_N.mzML
FILES
DERIVED_FILES
13d-3_P.mzML
FILES
DERIVED_FILES
16d-1_N.mzML
FILES
DERIVED_FILES
16d-1_P.mzML
FILES
DERIVED_FILES
16d-2_N.mzML
FILES
DERIVED_FILES
16d-2_P.mzML
FILES
DERIVED_FILES
16d-3_N.mzML
FILES
DERIVED_FILES
16d-3_P.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 30%|███       | 503/1674 [1:00:27<1:42:09,  5.23s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 30%|███       | 504/1674 [1:00:32<1:39:18,  5.09s/it]
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10848
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
FILES
DERIVED FILES
0 Day_neg.mzXML
FILES
DERIVED FILES
0 Day_pos.mzXML
FILES
DERIVED FILES
5 Day_neg.mzXML
FILES
DERIVED FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
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IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10890
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS317
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS275
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS319
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus III: missing value
IonizationSourceAndPolarity:
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FILES
100_1.cdf
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.6/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 30%|███       | 508/1674 [1:00:46<1:33:22,  4.80s/it]
 30%|███       | 509/1674 [1:00:47<1:14:05,  3.82s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 30%|███       | 510/1674 [1:00:52<1:21:45,  4.21s/it]
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 171 rows!
Added 171 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1629
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1636
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975 MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
180608_01.mzXML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS320
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus III: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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QC3_7.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 31%|███       | 511/1674 [1:01:02<1:52:16,  5.79s/it]
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_MS Assay Name
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Number of rows removed due to not enough metadata: 0
Returning 155 rows!
Added 155 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2259
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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POS/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 1085 rows!
Added 1085 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS321
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 7200 Q-TOF: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 31%|███       | 513/1674 [1:01:29<2:54:14,  9.00s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 31%|███       | 514/1674 [1:01:34<2:28:35,  7.69s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 31%|███       | 515/1674 [1:01:40<2:18:53,  7.19s/it]
 31%|███       | 516/1674 [1:01:41<1:44:56,  5.44s/it]
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 25 rows!
Added 25 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS228
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap XL: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20131126_024_JM_BM_exp12-10-18_S1_0s.mzML
FILES
20131126_026_JM_BM_exp12-10-18_S2_5s.mzML
FILES
20131126_028_JM_BM_exp12-10-18_S3_10s.mzML
FILES
20131126_030_JM_BM_exp12-10-18_S4_20s.mzML
FILES
20131126_032_JM_BM_exp12-10-18_S5_30s.mzML
FILES
20131126_034_JM_BM_exp12-10-18_S6_60s.mzML
FILES
20131126_036_JM_BM_exp12-10-18_S7_120s.mzML
FILES
20131126_038_JM_BM_exp12-10-18_S8_300s.mzML
FILES
20131126_040_JM_BM_exp12-10-18_S9_600s.mzML
FILES
20131204_072_JM_BM_internal_standard.mzML
FILES
20131209_103_JM_BM_exp12-09-26_S1_0s.mzML
FILES
20131209_105_JM_BM_exp12-09-26_S2_5s.mzML
FILES
20131209_107_JM_BM_exp12-09-26_S3_10s.mzML
FILES
20131209_109_JM_BM_exp12-09-26_S4_20s.mzML
FILES
20131209_111_JM_BM_exp12-09-26_S5_30s.mzML
FILES
20131209_113_JM_BM_exp12-09-26_S6_60s.mzML
FILES
20131209_115_JM_BM_exp12-09-26_S7_120s.mzML
FILES
20131209_117_JM_BM_exp12-09-26_S8_300s.mzML
FILES
20131209_119_JM_BM_exp12-09-26_S9_600s.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_incubation time
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 19 rows!
Added 19 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS322
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G2 HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
p1719_o1254_01.raw
FILES
p1719_o1254_01_a.raw
FILES
p1719_o1254_02.raw
FILES
p1719_o1254_02r.raw
FILES
p1719_o1254_03.raw
FILES
p1719_o1254_03r.raw
FILES
p1719_o1254_04.raw
FILES
p1719_o1254_04r.raw
FILES
p1719_o1254_05.raw
FILES
p1719_o1254_05r.raw
FILES
p1719_o1254_06.raw
FILES
p1719_o1254_06r.raw
FILES
p1719_o1254_07.raw
FILES
p1719_o1254_07r.raw
FILES
p1719_o1254_08.raw
FILES
p1719_o1254_08r.raw
FILES
p1719_o1254_09.raw
FILES
p1719_o1254_09r.raw
FILES
p1719_o1254_10.raw
FILES
p1719_o1254_10r.raw
FILES
p1719_o1254_11.raw
FILES
p1719_o1254_11r.raw
FILES
p1719_o1254_12.raw
FILES
p1719_o1254_12r.raw
FILES
p1719_o1254_13.raw
FILES
p1719_o1254_13r.raw
FILES
p1719_o1254_14.raw
FILES
p1719_o1254_14r.raw
FILES
p1719_o1254_15.raw
FILES
p1719_o1254_15r.raw
FILES
p1719_o1254_16.raw
FILES
p1719_o1254_16r.raw
FILES
p1719_o1254_17.raw
FILES
p1719_o1254_17r.raw
FILES
p1719_o1254_18.raw
FILES
p1719_o1254_18r.raw
IGNORED:  Samples_Nandrolone duration
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Tendon release
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Nandrolone dose
IGNORED:  Assay_Scan m/z range
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Tendon reattachment
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS326
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS330
Request successful!
SampleCollectionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 31%|███       | 517/1674 [1:01:49<1:57:56,  6.12s/it]
 31%|███       | 518/1674 [1:01:50<1:31:47,  4.76s/it]
 31%|███       | 519/1674 [1:01:52<1:14:37,  3.88s/it]
 31%|███       | 520/1674 [1:01:54<1:00:21,  3.14s/it]
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
IL_010614_1602.CDF
FILES
IL_010614_2702.CDF
FILES
IL_010614_402.CDF
FILES
IL_070714_1002.CDF
FILES
IL_070714_1602.CDF
FILES
IL_070714_302.CDF
FILES
IL_070714_3702.CDF
FILES
IL_140914_1502.CDF
FILES
IL_140914_2002.CDF
FILES
IL_140914_2602.CDF
FILES
IL_140914_3102.CDF
FILES
IL_140914_3802.CDF
FILES
IL_140914_402.CDF
FILES
IL_140914_4102.CDF
FILES
IL_140914_4902.CDF
FILES
IL_140914_5202.CDF
FILES
IL_140914_5502.CDF
FILES
IL_140914_5902.CDF
FILES
IL_140914_6402.CDF
FILES
IL_230614_1202.CDF
FILES
IL_230614_1602.CDF
FILES
IL_230614_2102.CDF
FILES
IL_230614_3802.CDF
FILES
IL_230614_4402.CDF
FILES
IL_230614_5102.CDF
FILES
IL_230614_6202.CDF
FILES
IL_230614_702.CDF
FILES
IL_230614_7102.CDF
FILES
IL_230614_7702.CDF
FILES
IL_230614_8602.CDF
FILES
IL_230614_9202.CDF
FILES
IL_230614_9502.CDF
FILES
IL_240814_402.CDF
FILES
IL_240814_5302.CDF
FILES
IL_240814_7902.CDF
FILES
IL_240814_902.CDF
FILES
IL_260514_402.CDF
FILES
IL_280514_2302.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Tissue
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Life cycle stage
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2305
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2324
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2317
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2319
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
D10_neg.mzXML
FILES
DERIVED_FILES
D10_pos.mzXML
FILES
DERIVED_FILES
D11_neg.mzXML
FILES
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D11_pos.mzXML
FILES
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D12_neg.mzXML
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D12_pos.mzXML
FILES
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D13_neg.mzXML
FILES
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D13_pos.mzXML
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D14_neg.mzXML
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D14_pos.mzXML
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D15_neg.mzXML
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D16_neg.mzXML
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D17_neg.mzXML
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D18_neg.mzXML
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D19_neg.mzXML
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D1_neg.mzXML
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D21_neg.mzXML
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D22_neg.mzXML
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D25_neg.mzXML
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D25_pos.mzXML
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D26_neg.mzXML
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D26_pos.mzXML
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D27_neg.mzXML
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D27_pos.mzXML
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DERIVED_FILES
D28_neg.mzXML
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D28_pos.mzXML
FILES
DERIVED_FILES
D29_neg.mzXML
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D29_pos.mzXML
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DERIVED_FILES
D2_neg.mzXML
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D2_pos.mzXML
FILES
DERIVED_FILES
D30_neg.mzXML
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D30_pos.mzXML
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DERIVED_FILES
D31_neg.mzXML
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D31_pos.mzXML
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DERIVED_FILES
D32_neg.mzXML
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X2_neg.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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X7_pos.mzXML
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DERIVED_FILES
X80_neg.mzXML
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DERIVED_FILES
X80_pos.mzXML
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X81_neg.mzXML
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X81_pos.mzXML
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X82_neg.mzXML
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X83_neg.mzXML
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X89_neg.mzXML
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DERIVED_FILES
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X8_neg.mzXML
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X8_pos.mzXML
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X90_neg.mzXML
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X90_pos.mzXML
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DERIVED_FILES
X91_neg.mzXML
FILES
DERIVED_FILES
X91_pos.mzXML
FILES
DERIVED_FILES
X92_neg.mzXML
FILES
DERIVED_FILES
X92_pos.mzXML
FILES
DERIVED_FILES
X93_neg.mzXML
FILES
DERIVED_FILES
X93_pos.mzXML
FILES
DERIVED_FILES
X94_neg.mzXML
FILES
DERIVED_FILES
X94_pos.mzXML
FILES
DERIVED_FILES
X95_neg.mzXML
FILES
DERIVED_FILES
X95_pos.mzXML
FILES
DERIVED_FILES
X96_neg.mzXML
FILES
DERIVED_FILES
X96_pos.mzXML
FILES
DERIVED_FILES
X97_neg.mzXML
FILES
DERIVED_FILES
X97_pos.mzXML
FILES
DERIVED_FILES
X98_neg.mzXML
FILES
DERIVED_FILES
X98_pos.mzXML
FILES
DERIVED_FILES
X99_neg.mzXML
FILES
DERIVED_FILES
X99_pos.mzXML
FILES
DERIVED_FILES
X9_neg.mzXML
FILES
DERIVED_FILES
X9_pos.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Symptom
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Child-Pugh
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 490 rows!
Added 490 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2331
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS332
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 31%|███       | 523/1674 [1:02:12<1:25:47,  4.47s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 31%|███▏      | 524/1674 [1:02:18<1:35:10,  4.97s/it]
  Agilent 5975C inert XL MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
110113B_03.CDF
FILES
110113B_04.CDF
FILES
110113B_05.CDF
FILES
110113B_06.CDF
FILES
110113B_07.CDF
FILES
110113B_08.CDF
FILES
110113B_12.CDF
FILES
110113B_13.CDF
FILES
110113B_14.CDF
FILES
110113B_15.CDF
FILES
110113B_16.CDF
FILES
110113B_17.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_BT03
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Variant
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_GM41
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS333
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
AG_11_BP_Y_01_0801.CDF
FILES
AG_11_SM_Y_28_1301.CDF
FILES
AG_12_BP_Y_02_2901.CDF
FILES
Ab_11_DR_R_20_1601.CDF
FILES
Ab_11_VG_R_16_2701.CDF
FILES
An_10_VG_Y_03_0101.CDF
FILES
An_11_VG_Y_04_0401.CDF
FILES
BP_10_BP_R_13_0201.CDF
FILES
FG_11_VG_Y_05_2001.CDF
FILES
GQ_11_VG_Y_06_1801.CDF
FILES
He_11_VG_R_15_1701.CDF
FILES
JM_11_VG_Y_07_0501.CDF
FILES
Lu_11_DR_Y_08_2801.CDF
FILES
OM_11_DR_P_09_1501.CDF
FILES
Po_10_BP_R_14_2301.CDF
FILES
Pp_10_VG_R_18_3001.CDF
FILES
SG_10_BP_Y_10_0901.CDF
FILES
SG_11_BP_Y_11_2101.CDF
FILES
SG_12_BP_Y_12_1201.CDF
FILES
SR_10_BP_R_21_2401.CDF
FILES
SR_11_BP_R_22_2201.CDF
FILES
SR_12_BP_R_23_0701.CDF
FILES
Tu_10_BP_R_24_1001.CDF
FILES
Tu_11_BP_R_26_2501.CDF
FILES
Tu_11_DR_R_19_1401.CDF
FILES
Tu_11_VG_R_27_1901.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Colour
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Freezing method
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Cultivation Year
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Storage conditions
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
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IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 26 rows!
Added 26 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11277
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap ID-X Tribrid: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
MM_01_WT_R1.mzML
FILES
MM_02_INH-1_R1.mzML
FILES
MM_11_buffer_2.mzML
FILES
MM_12_WT_R2.mzML
FILES
MM_13_INH-1_R2.mzML
FILES
MM_22_buffer_2.mzML
FILES
MM_23_WT_R3.mzML
FILES
MM_24_INH-1_R3.mzML
FILES
MM_33_buffer_2.mzML
FILES
MM_34_WT_R4.mzML
FILES
MM_35_INH-1_R4.mzML
FILES
MM_44_buffer_2.mzML
FILES
MM_45_WT_R5.mzML
FILES
MM_46_INH-1_R5.mzML
FILES
MM_55_buffer_2.mzML
FILES
MM_56_WT_R6.mzML
FILES
MM_57_INH-1_R6.mzML
FILES
MM_66_buffer_2.mzML
FILES
MM_PBQC_ISTDS_01.mzML
FILES
MM_PBQC_ISTDS_02.mzML
FILES
MM_PBQC_ISTDS_03.mzML
FILES
MM_PBQC_ISTDS_04.mzML
FILES
MM_PBQC_ISTDS_05.mzML
FILES
MM_PBQC_ISTDS_06.mzML
FILES
MM_PBQC_ISTDS_07.mzML
FILES
MM_PBQC_ISTDS_08.mzML
FILES
MM_PBQC_ISTDS_09.mzML
FILES
MM_PBQC_ISTDS_10.mzML
FILES
MM_PBQC_ISTDS_11.mzML
FILES
MM_PBQC_ISTDS_12.mzML
FILES
MM_PBQC_ISTDS_A.mzML
FILES
MM_PBQC_ISTDS_B.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 31%|███▏      | 525/1674 [1:02:24<1:43:55,  5.43s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 31%|███▏      | 526/1674 [1:02:29<1:41:57,  5.33s/it]
FILES
MM_PBQC_ISTDS_C.mzML
FILES
MM_PBQC_ISTDS_D.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Drug-resistance-conferring mutation
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  keep
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 16
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS235
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  MSSimulator: missing value
FILES
detnoise_sigma0_PICKED.mzML
FILES
detnoise_sigma100_PICKED.mzML
FILES
detnoise_sigma10_PICKED.mzML
FILES
detnoise_sigma12_PICKED.mzML
FILES
detnoise_sigma15_PICKED.mzML
FILES
detnoise_sigma20_PICKED.mzML
FILES
detnoise_sigma25_PICKED.mzML
FILES
detnoise_sigma30_PICKED.mzML
FILES
detnoise_sigma3_PICKED.mzML
FILES
detnoise_sigma40_PICKED.mzML
FILES
detnoise_sigma50_PICKED.mzML
FILES
detnoise_sigma5_PICKED.mzML
FILES
detnoise_sigma70_PICKED.mzML
FILES
errorPPM_10_PICKED.mzML
FILES
errorPPM_40_PICKED.mzML
FILES
intensityDistort_10_PICKED.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_simulated mass error
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_simulated detector noise
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Samples_simulated error profile distortion
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 16
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS334
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Elite: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
10A Lean.raw
FILES
10A Obese.raw
FILES
10B Lean.raw
FILES
10B Obese.raw
FILES
10C Lean.raw
FILES
10C Obese.raw
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11A Lean.raw
FILES
11A Obese.raw
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FILES
11C Lean.raw
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11C Obese.raw
FILES
12A Lean.raw
FILES
12B Lean.raw
FILES
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FILES
1A Lean.raw
FILES
1A Obese.raw
FILES
1B Lean.raw
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1B Obese.raw
FILES
1C Lean.raw
FILES
1C Obese.raw
FILES
2A Lean.raw
FILES
2A Obese.raw
FILES
2B Lean.raw
FILES
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FILES
2C Lean.raw
FILES
2C Obese.raw
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3A Lean.raw
FILES
3A Obese.raw
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3B Lean.raw
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3B Obese.raw
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3C Lean.raw
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4A Lean.raw
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4B Lean.raw
FILES
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4C Obese.raw
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FILES
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FILES
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FILES
5C Lean.raw
FILES
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FILES
6A Lean.raw
FILES
6A Obese.raw
FILES
6B Lean.raw
FILES
6B Obese.raw
FILES
6C Lean.raw
FILES
6C Obese.raw
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7A Lean.raw
FILES
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FILES
7B Lean.raw
FILES
7B Obese.raw
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7C Lean.raw
FILES
7C Obese.raw
FILES
8A Lean.raw
FILES
8A Obese.raw
FILES
8B Lean.raw
FILES
8B Obese.raw
FILES
8C Lean.raw
FILES
9A Lean.raw
FILES
9A Obese.raw
FILES
9B Lean.raw
FILES
9B Obese.raw
FILES
9C Lean.raw
FILES
9C Obese.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Diet
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 31%|███▏      | 527/1674 [1:02:35<1:43:23,  5.41s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 32%|███▏      | 528/1674 [1:02:41<1:48:50,  5.70s/it]
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 68 rows!
Added 68 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2790
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6520A Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
ALLEPI_NEG.d
FILES
ALLEPI_POS.d
FILES
ARAKU_NEG_MSMS.d
FILES
ARAKU_POS_MSMS.d
FILES
AVIDI_NEG.d
FILES
AVIDI_POS.d
FILES
DUGGIRALA MSMS POS.d
FILES
DUGGIRALA_NEG.d
FILES
IS_100_NEG0001.d
FILES
IS_100_POS0001.d
FILES
IS_50_NEG.d
FILES
IS_50_POS.d
FILES
PCT_NEG_MSMS.d
FILES
PCT_POS_MSMS.d
FILES
PRATIBA_NEG.d
FILES
PRATIBA_POS.d
FILES
SALEM_NEG.d
FILES
SALEM_POS.d
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
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IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Sample Dilution
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 14 rows!
Added 14 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS335
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q II: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
ANT1_20EV_RA3_01_22646.cdf
FILES
ANT1_30EV_RA3_01_22647.cdf
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ANT1_40EV_RA3_01_22649.cdf
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BUD2_20EV_RA5_01_22584.cdf
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COR1_MS_RA7_01_22681.cdf
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COR2_20EV_RA1_01_22545.cdf
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COR2_30EV_RA1_01_22546.cdf
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COR2_40EV_RA1_01_22548.cdf
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LEA2_MS_RA2_01_22553.cdf
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LIM1_20EV_RA6_01_22673.cdf
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FILES
LIM1_40EV_RA6_01_22676.cdf
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LIM1_50EV_RA6_01_22677.cdf
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LIM2_20EV_RA8_01_22537.cdf
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FILES
NEC1_20EV_RA7_01_22603.cdf
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NEC1_30EV_RA7_01_22604.cdf
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NEC1_40EV_RA7_01_22606.cdf
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NEC1_50EV_RA7_01_22607.cdf
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NEC2_20EV_RA1_01_22483.cdf
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NEC2_30EV_RA1_01_22484.cdf
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NEC2_40EV_RA1_01_22485.cdf
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OVA2_30EV_RA2_01_22490.cdf
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OVA2_40EV_RA2_01_22491.cdf
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OVA2_50EV_RA2_01_22492.cdf
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OVA2_MS_RA2_01_22488.cdf
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PED1_20EV_RA5_01_22664.cdf
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PED1_30EV_RA5_01_22665.cdf
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PED1_40EV_RA5_01_22667.cdf
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PED2_20EV_RA7_01_22529.cdf
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FILES
ROO1_30EV_RA1_01_22701.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 32%|███▏      | 529/1674 [1:02:48<1:55:20,  6.04s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 32%|███▏      | 530/1674 [1:02:56<2:04:12,  6.51s/it]
 32%|███▏      | 531/1674 [1:02:57<1:34:57,  4.98s/it]
FILES
ROO1_40EV_RA1_01_22703.cdf
FILES
ROO1_50EV_RA1_01_22705.cdf
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ROO1_MS_RA1_01_22699.cdf
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SEP1_20EV_RA4_01_22655.cdf
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FILES
SEP2_20EV_RA6_01_22521.cdf
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SEP2_30EV_RA6_01_22522.cdf
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SEP2_40EV_RA6_01_22523.cdf
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STY2_40EV_RA4_01_22508.cdf
FILES
STY2_50EV_RA4_01_22509.cdf
FILES
STY2_MS_RA4_01_22500.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_tissue type
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Methanol extraction
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_collision energy
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 140 rows!
Added 140 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS336
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
FILES
LCMS_blank5.raw
FILES
YeR_LCMS_C01.raw
FILES
YeR_LCMS_C02.raw
FILES
YeR_LCMS_C03.raw
FILES
YeR_LCMS_C04.raw
FILES
YeR_LCMS_C05.raw
FILES
YeR_LCMS_C06.raw
FILES
YeR_LCMS_C07.raw
FILES
YeR_LCMS_C08.raw
FILES
YeR_LCMS_C09.raw
FILES
YeR_LCMS_C10.raw
FILES
YeR_LCMS_QC01.raw
FILES
YeR_LCMS_QC02.raw
FILES
YeR_LCMS_QC03.raw
FILES
YeR_LCMS_QC04.raw
FILES
YeR_LCMS_QC05.raw
FILES
YeR_LCMS_QC06.raw
FILES
YeR_LCMS_QC07.raw
FILES
YeR_LCMS_QC08.raw
FILES
YeR_LCMS_T01.raw
FILES
YeR_LCMS_T02.raw
FILES
YeR_LCMS_T03.raw
FILES
YeR_LCMS_T04.raw
FILES
YeR_LCMS_T05.raw
FILES
YeR_LCMS_T06.raw
FILES
YeR_LCMS_T07.raw
FILES
YeR_LCMS_T08.raw
FILES
YeR_LCMS_T09.raw
FILES
YeR_LCMS_T10.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Assay_Derived Spectral Data File.1
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 28
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS337
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11473
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
NEG_Ha19ZGQ_HC_CK_2.raw
FILES
NEG_Ha19ZGQ_HC_CK_4.raw
FILES
NEG_Ha19ZGQ_HC_CK_6.raw
FILES
NEG_Ha19ZGQ_HC_HA_2.raw
FILES
NEG_Ha19ZGQ_HC_HA_5.raw
FILES
NEG_Ha19ZGQ_HC_HA_6.raw
FILES
NEG_Ha19ZGQ_H_CK_1.raw
FILES
NEG_Ha19ZGQ_H_CK_2.raw
FILES
NEG_Ha19ZGQ_H_CK_4.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 32%|███▏      | 532/1674 [1:03:05<1:50:14,  5.79s/it]
FILES
NEG_Ha19ZGQ_H_HA_1.raw
FILES
NEG_Ha19ZGQ_H_HA_2.raw
FILES
NEG_Ha19ZGQ_H_HA_5.raw
FILES
NEG_Ha19ZGQ_QC01.raw
FILES
NEG_Ha19ZGQ_QC02.raw
FILES
NEG_Ha19ZGQ_QC03.raw
FILES
POS_Ha19ZGQ_HC_CK_2.raw
FILES
POS_Ha19ZGQ_HC_CK_4.raw
FILES
POS_Ha19ZGQ_HC_CK_6.raw
FILES
POS_Ha19ZGQ_HC_HA_2.raw
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POS_Ha19ZGQ_HC_HA_5.raw
FILES
POS_Ha19ZGQ_HC_HA_6.raw
FILES
POS_Ha19ZGQ_H_CK_1.raw
FILES
POS_Ha19ZGQ_H_CK_2.raw
FILES
POS_Ha19ZGQ_H_CK_4.raw
FILES
POS_Ha19ZGQ_H_HA_1.raw
FILES
POS_Ha19ZGQ_H_HA_2.raw
FILES
POS_Ha19ZGQ_H_HA_5.raw
FILES
POS_Ha19ZGQ_QC01.raw
FILES
POS_Ha19ZGQ_QC02.raw
FILES
POS_Ha19ZGQ_QC03.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Is Descendant
IGNORED:  Samples_Microbial extract
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 18
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS338
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C inert XL MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
0307_1.CDF
FILES
0307_10.CDF
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0307_12.CDF
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2506_9.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Assay_Derived Spectral Data File.1
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 32%|███▏      | 533/1674 [1:03:13<2:06:25,  6.65s/it]
 32%|███▏      | 534/1674 [1:03:15<1:36:02,  5.05s/it]
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 210 rows!
Added 210 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS340
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS341
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
  Bruker micrOTOF-Q I: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Assay_Scan polarity/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 32%|███▏      | 535/1674 [1:03:22<1:48:03,  5.69s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 32%|███▏      | 536/1674 [1:03:28<1:48:25,  5.72s/it]
IGNORED:  Assay_Term Accession Number.2
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Number of rows removed due to not enough metadata: 0
Returning 150 rows!
Added 150 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2397
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Gene knockout
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 71 rows!
Added 71 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2398
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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non-IBS_P8_20181031/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Disease
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample matrix
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_Biological replicate
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Stool donor
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 897 rows!
Added 897 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2402
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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DERIVED_FILES
mzml_negative
190930-11_S9-SPE-Neg-MS1DD_Fenpropimorph_R3.mzML
FILES
DERIVED_FILES
mzml_negative
190930-12_S9-SPE-Neg-MS1DD_Chlorpyriphos_R1.mzML
FILES
DERIVED_FILES
mzml_negative
190930-13_S9-SPE-Neg-MS1DD_Dimethoat_R1.mzML
FILES
DERIVED_FILES
mzml_negative
190930-14_S9-SPE-Neg-MS1DD_Blank14.mzML
FILES
DERIVED_FILES
mzml_negative
190930-15_S9-SPE-Neg-MS1DD_Dimethoat_clean.mzML
FILES
DERIVED_FILES
mzml_negative
190930-16_S9-SPE-Neg-MS1DD_Metazachlor_R1.mzML
FILES
DERIVED_FILES
mzml_negative
190930-17_S9-SPE-Neg-MS1DD_Atrazin_R1.mzML
FILES
DERIVED_FILES
mzml_negative
190930-18_S9-SPE-Neg-MS1DD_Azoxystrobin_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-19_S9-SPE-Neg-MS1DD_Azoxystrobin_R1.mzML
FILES
DERIVED_FILES
mzml_negative
190930-20_S9-SPE-Neg-MS1DD_Blank15.mzML
FILES
DERIVED_FILES
mzml_negative
190930-21_S9-SPE-Neg-MS1DD_Metazachlor_clean.mzML
FILES
DERIVED_FILES
mzml_negative
190930-22_S9-SPE-Neg-MS1DD_Isoproturon_R1.mzML
FILES
DERIVED_FILES
mzml_negative
190930-23_S9-SPE-Neg-MS1DD_Dimethenamid_R3.mzML
FILES
DERIVED_FILES
mzml_negative
190930-24_S9-SPE-Neg-MS1DD_Terbuthylazin_R3.mzML
FILES
DERIVED_FILES
mzml_negative
190930-25_S9-SPE-Neg-MS1DD_Fipronil_clean.mzML
FILES
DERIVED_FILES
mzml_negative
190930-26_S9-SPE-Neg-MS1DD_Terbutryn_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-27_S9-SPE-Neg-MS1DD_Blank16.mzML
FILES
DERIVED_FILES
mzml_negative
190930-28_S9-SPE-Neg-MS1DD_Imidacloprid_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-29_S9-SPE-Neg-MS1DD_Fipronil_R1.mzML
FILES
DERIVED_FILES
mzml_negative
190930-2_S9-SPE-Neg-MS1DD_Blank12.mzML
FILES
DERIVED_FILES
mzml_negative
190930-30_S9-SPE-Neg-MS1DD_Fenpropimorph_R1.mzML
FILES
DERIVED_FILES
mzml_negative
190930-31_S9-SPE-Neg-MS1DD_Chlorpyriphos_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-32_S9-SPE-Neg-MS1DD_24D_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-33_S9-SPE-Neg-MS1DID_Diflufenican_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-34_S9-SPE-Neg-MS1DD_Blank17.mzML
FILES
DERIVED_FILES
mzml_negative
190930-35_S9-SPE-Neg-MS1DD_Dimethoat_R3.mzML
FILES
DERIVED_FILES
mzml_negative
190930-36_S9-SPE-Neg-MS1DD_Fenpropimorph_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-37_S9-SPE-Neg-MS1DD_Dimethoat_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-38_S9-SPE-Neg-MS1DD_Metamitron_R1.mzML
FILES
DERIVED_FILES
mzml_negative
190930-39_S9-SPE-Neg-MS1DD_Picolinafen_clean.mzML
FILES
DERIVED_FILES
mzml_negative
190930-3_S9-SPE-Neg-MS1DD_Flufenacet_clean.mzML
FILES
DERIVED_FILES
mzml_negative
190930-40_S9-SPE-Neg-MS1DD_Cypermethrin_clean.mzML
FILES
DERIVED_FILES
mzml_negative
190930-41_S9-SPE-Neg-MS1DD_Blank18.mzML
FILES
DERIVED_FILES
mzml_negative
190930-4_S9-SPE-Neg-MS1DD_Terbuthylazin_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-5_S9-SPE-Neg-MS1DD_NC2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-6_S9-SPE-Neg-MS1DD_Dimethenamid_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-7_S9-SPE-Neg-MS1DD_Metamitron_R2.mzML
FILES
DERIVED_FILES
mzml_negative
190930-8_S9-SPE-Neg-MS1DD_Blank13.mzML
FILES
DERIVED_FILES
mzml_negative
190930-9_S9-SPE-Neg-MS1DD_Picolinafen_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-10_S9-SPE-Pos-MS1DD_Flufenacet_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190925-11_S9-SPE-Pos-MS1DD_Metolachlor_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190925-12_S9-SPE-Pos-MS1DD_Metolachlor_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-13_S9-SPE-Pos-MS1DD_Chlorpyriphos_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-14_S9-SPE-Pos-MS1DD_Blank4.mzML
FILES
DERIVED_FILES
mzml_positive
190925-15_S9-SPE-Pos-MS1DD_NC3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-16_S9-SPE-Pos-MS1DD_Metamitron_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190925-17_S9-SPE-Pos-MS1DD_Metamitron_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-18_S9-SPE-Pos-MS1DD_Pendimethalin_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190925-19_S9-SPE-Pos-MS1DD_Chlortoluron_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-20_S9-SPE-Pos-MS1DD_Blank5.mzML
FILES
DERIVED_FILES
mzml_positive
190925-21_S9-SPE-Pos-MS1DD_Diflufenican_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-22_S9-SPE-Pos-MS1DD_Dimethenamid_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190925-23_S9-SPE-Pos-MS1DD_Diflufenican_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190925-24_S9-SPE-Pos-MS1DD_Cypermethrin_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190925-25_S9-SPE-Pos-MS1DD_Pendimethalin_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190925-26_S9-SPE-Pos-MS1DD_Blank6.mzML
FILES
DERIVED_FILES
mzml_positive
190925-27_S9-SPE-Pos-MS1DD_Terbutryn_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190925-28_S9-SPE-Pos-MS1DD_Picolinafen_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190925-29_S9-SPE-Pos-MS1DD_NC6.mzML
FILES
DERIVED_FILES
mzml_positive
190925-30_S9-SPE-Pos-MS1DD_Cypermethrin_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-31_S9-SPE-Pos-MS1DD_Chlortoluron_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190925-32_S9-SPE-Pos-MS1DD_Blank7.mzML
FILES
DERIVED_FILES
mzml_positive
190925-33_S9-SPE-Pos-MS1DD_Flufenacet_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190925-34_S9-SPE-Pos-MS1DD_Metolachlor_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190925-35_S9-SPE-Pos-MS1DD_Terbutryn_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-36_S9-SPE-Pos-MS1DD_Atrazin_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190925-37_S9-SPE-Pos-MS1DD_Bifenox_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190925-38_S9-SPE-Pos-MS1DD_Blank8.mzML
FILES
DERIVED_FILES
mzml_positive
190925-3_S9-SPE-Pos-MS1DD_Bifenox_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190925-4_S9-SPE-Pos-MS1DD_NC4.mzML
FILES
DERIVED_FILES
mzml_positive
190925-5_S9-SPE-Pos-MS1DD_Atrazin_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-6_S9-SPE-Pos-MS1DD_Terbutryn_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190925-7_S9-SPE-Pos-MS1DD_Metolachlor_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190925-8_S9-SPE-Pos-MS1DD_Blank3.mzML
FILES
DERIVED_FILES
mzml_positive
190925-9_S9-SPE-Pos-MS1DD_Isoproturon_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-10_S9-SPE-Pos-MS1DD_Fenpropimorph_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-11_S9-SPE-Pos-MS1DD_Atrazin_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-12_S9-SPE-Pos-MS1DD_Blank14.mzML
FILES
DERIVED_FILES
mzml_positive
190926-13_S9-SPE-Pos-MS1DD_Terbuthylazin_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190926-14_S9-SPE-Pos-MS1DD_Metazachlor_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190926-15_S9-SPE-Pos-MS1DD_Imidacloprid_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190926-16_S9-SPE-Pos-MS1DD_Imidacloprid_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190926-17_S9-SPE-Pos-MS1DD_24D_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-17_S9-SPE-Pos-MS1DD_Blank2.mzML
FILES
DERIVED_FILES
mzml_positive
190926-18_S9-SPE-Pos-MS1DD_Chlortoluron_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-19_S9-SPE-Pos-MS1DD_Isoproturon_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190926-20_S9-SPE-Pos-MS1DD_NC1.mzML
FILES
DERIVED_FILES
mzml_positive
190926-21_S9-SPE-Pos-MS1DD_Pendimethalin_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190926-22_S9-SPE-Pos-MS1DD_B2.mzML
FILES
DERIVED_FILES
mzml_positive
190926-23_S9-SPE-Pos-MS1DD_24D_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190926-24_S9-SPE-Pos-MS1DD_Chlorpyriphos_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-25_S9-SPE-Pos-MS1DD_Imidacloprid_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-26_S9-SPE-Pos-MS1DD_Dimethenamid_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-27_S9-SPE-Pos-MS1DD_Cypermethrin_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190926-28_S9-SPE-Pos-MS1DD_Blank3.mzML
FILES
DERIVED_FILES
mzml_positive
190926-29_S9-SPE-Pos-MS1DD_Azoxystrobin_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-30_S9-SPE-Pos-MS1DD_Bifenox_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190926-31_S9-SPE-Pos-MS1DD_Bifenox_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190926-32_S9-SPE-Pos-MS1DD_Flufenacet_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190926-33_S9-SPE-Pos-MS1DD_Picolinafen_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190926-34_S9-SPE-Pos-MS1DD_Blank4.mzML
FILES
DERIVED_FILES
mzml_positive
190926-35_S9-SPE-Pos-MS1DD_Metazachlor_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190926-36_S9-SPE-Pos-MS1DD_Fipronil_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190926-37_S9-SPE-Pos-MS1DD_B1.mzML
FILES
DERIVED_FILES
mzml_positive
190926-38_S9-SPE-Pos-MS1DD_Isoproturon_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190926-39_S9-SPE-Pos-MS1DD_Chlortoluron_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190926-3_S9-SPE-Pos-MS1DD_NC5.mzML
FILES
DERIVED_FILES
mzml_positive
190926-4_S9-SPE-Pos-MS1DD_Azoxystrobin_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190926-5_S9-SPE-Pos-MS1DD_24D_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190926-6_S9-SPE-Pos-MS1DD_Terbuthylazin_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190926-7_S9-SPE-Pos-MS1DD_Blank13.mzML
FILES
DERIVED_FILES
mzml_positive
190926-8_S9-SPE-Pos-MS1DD_Fipronil_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190926-9_S9-SPE-Pos-MS1DD_Pendimethalin_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190927-10_S9-SPE-Pos-MS1DD_Diflufenican_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-11_S9-SPE-Pos-MS1DD_Fenpropimorph_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190927-12_S9-SPE-Pos-MS1DD_Chlorpyriphos_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-13_S9-SPE-Pos-MS1DD_Dimethoat_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-14_S9-SPE-Pos-MS1DD_Blank14.mzML
FILES
DERIVED_FILES
mzml_positive
190927-15_S9-SPE-Pos-MS1DD_Dimethoat_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190927-16_S9-SPE-Pos-MS1DD_Metazachlor_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-17_S9-SPE-Pos-MS1DD_Atrazin_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-18_S9-SPE-Pos-MS1DD_Azoxystrobin_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-19_S9-SPE-Pos-MS1DD_Azoxystrobin_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-1_S9-SPE-Pos-MS1DD_Blank11.mzML
FILES
DERIVED_FILES
mzml_positive
190927-20_S9-SPE-Pos-MS1DD_Blank15.mzML
FILES
DERIVED_FILES
mzml_positive
190927-21_S9-SPE-Pos-MS1DD_Metazachlor_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190927-22_S9-SPE-Pos-MS1DD_Isoproturon_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-23_S9-SPE-Pos-MS1DD_Dimethenamid_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190927-24_S9-SPE-Pos-MS1DD_Terbuthylazin_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190927-25_S9-SPE-Pos-MS1DD_Fipronil_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190927-26_S9-SPE-Pos-MS1DD_Terbutryn_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-27_S9-SPE-Pos-MS1DD_Blank16.mzML
FILES
DERIVED_FILES
mzml_positive
190927-28_S9-SPE-Pos-MS1DD_Imidacloprid_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-29_S9-SPE-Pos-MS1DD_Fipronil_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-2_S9-SPE-Pos-MS1DD_Blank12.mzML
FILES
DERIVED_FILES
mzml_positive
190927-30_S9-SPE-Pos-MS1DD_Fenpropimorph_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-31_S9-SPE-Pos-MS1DD_Chlorpyriphos_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-32_S9-SPE-Pos-MS1DD_24D_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-33_S9-SPE-Pos-MS1DID_Diflufenican_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-34_S9-SPE-Pos-MS1DD_Blank17.mzML
FILES
DERIVED_FILES
mzml_positive
190927-35_S9-SPE-Pos-MS1DD_Dimethoat_R3.mzML
FILES
DERIVED_FILES
mzml_positive
190927-36_S9-SPE-Pos-MS1DD_Fenpropimorph_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-37_S9-SPE-Pos-MS1DD_Dimethoat_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-38_S9-SPE-Pos-MS1DD_Metamitron_R1.mzML
FILES
DERIVED_FILES
mzml_positive
190927-39_S9-SPE-Pos-MS1DD_Picolinafen_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190927-3_S9-SPE-Pos-MS1DD_Flufenacet_clean.mzML
FILES
DERIVED_FILES
mzml_positive
190927-40_S9-SPE-Pos-MS1DD_Cypermethrin_clean.mzML
FILES
DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 32%|███▏      | 538/1674 [1:04:01<3:25:13, 10.84s/it]
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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mzml_positive
190927-41_S9-SPE-Pos-MS1DD_Blank18.mzML
FILES
DERIVED_FILES
mzml_positive
190927-4_S9-SPE-Pos-MS1DD_Terbuthylazin_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-5_S9-SPE-Pos-MS1DD_NC2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-6_S9-SPE-Pos-MS1DD_Dimethenamid_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-7_S9-SPE-Pos-MS1DD_Metamitron_R2.mzML
FILES
DERIVED_FILES
mzml_positive
190927-8_S9-SPE-Pos-MS1DD_Blank13.mzML
FILES
DERIVED_FILES
mzml_positive
190927-9_S9-SPE-Pos-MS1DD_Picolinafen_R3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Variant
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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Number of rows removed due to not enough metadata: 44
Returning 186 rows!
Added 186 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS280
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS342
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS165
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SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
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FILES
LiLi-11d.raw
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LiLi-12d.raw
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LiLi-15d.raw
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LiLi-16d.raw
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YnYn-7d.raw
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Number of rows removed due to not enough metadata: 0
Returning 57 rows!
Added 57 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS343
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS346
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS350
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS352
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS354
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Is Fluid
IGNORED:  keep
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IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_disease state
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 478 rows!
Added 478 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS355
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS356
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS358
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
ChromatographyAndPhase:
  : missing value
FILES
51808_R001_2_TAG_SE_ReRun_20131211.wiff
FILES
51808_R001_R002_SGN_20131204.wiff
FILES
51808_R001_R002_SGP_20131204.wiff
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51808_R001_SGN_SE_20131125.wiff
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51808_R001_SGP_SE_20131125.wiff
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51808_R001_TAG_SE_20131204.wiff
FILES
51808_R001_TAG_SE_20131209.wiff
FILES
51808_R002_SGN_SE_20131129.wiff
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51808_R002_SGP_SE_20131129.wiff
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51808_R003_CER_SE_20131122.wiff
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51808_R004_CER_SE_20131126.wiff
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51808_R005_EC_SE_20131122.wiff
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51808_R006_EC_SE_20131126.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Study Group
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Pack year
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Ethinicity/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 33%|███▎      | 549/1674 [1:04:39<1:24:33,  4.51s/it]
 33%|███▎      | 550/1674 [1:04:41<1:07:36,  3.61s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 33%|███▎      | 551/1674 [1:04:48<1:27:16,  4.66s/it]
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
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IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
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IGNORED:  filepath
IGNORED:  Assay_Label
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 13 rows!
Added 13 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS169
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS170
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C inert XL MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
013014B_03.CDF
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050714B-03.CDF
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
120613B-16.CDF
FILES
120613B-17.CDF
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120613B-18.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Samples_SA_inhibition
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_MRSA_inhibition
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 68 rows!
Added 68 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS360
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 33%|███▎      | 552/1674 [1:04:54<1:33:34,  5.00s/it]
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 17 rows!
Added 17 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS361
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS362
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS363
Request successful!
SampleCollectionMethod: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS368
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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TQ12171436.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 33%|███▎      | 556/1674 [1:05:54<5:39:27, 18.22s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 33%|███▎      | 557/1674 [1:06:03<4:44:26, 15.28s/it]
FILES
TQ12171437.raw
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 734
Returning 1743 rows!
Added 1743 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS370
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
  Thermo Scientific ITQ 900: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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Number of rows removed due to not enough metadata: 22
Returning 37 rows!
Added 37 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS373
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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120310_R2_pure_neg_448.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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DERIVED_FILES
120310_R2_pure_neg_99.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
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IGNORED:  Samples_Term Source REF.6
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Number of rows removed due to not enough metadata: 0
Returning 14670 rows!
Added 14670 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS376
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6230 Accurate-Mass TOF: missing value
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Clea10_c.mzML
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CleaA2_c.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 156 rows!
Added 156 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS378
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS379
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS380
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2 QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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CC_WB_BAT_04.raw
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WB_ASWAT_06_03_12_POS_33.mzML
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WB_ASWAT_06_03_12_POS_34.mzML
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WB_ASWAT_06_03_12_POS_35.mzML
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WB_ASWAT_06_03_12_POS_36.mzML
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WB_ASWAT_06_03_12_POS_40.mzML
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WB_ASWAT_06_03_12_POS_60.mzML
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WB_ASWAT_06_03_12_POS_61.mzML
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WB_ASWAT_06_03_12_POS_62.mzML
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WB_ASWAT_06_03_12_POS_63.mzML
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WB_ASWAT_06_03_12_POS_64.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS381
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS383
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS384
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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IGNORED:  Assay_Ion source/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Data Transformation Name
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Number of rows removed due to not enough metadata: 0
Returning 145 rows!
Added 145 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS385
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS386
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS389
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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ENVOEnvironmentBiome:
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tho6 12_2-C,7_01_4256.mzML
FILES
tho6 13_2-C,8_01_4257.mzML
FILES
tho6 1_2-B,4_01_4243.mzML
FILES
tho6 2_2-B,5_01_4244.mzML
FILES
tho6 300uE_168h_10_2-D,8_01_10035.mzML
FILES
tho6 300uE_168h_11_2-E,1_01_10036.mzML
FILES
tho6 300uE_168h_12_2-E,2_01_10037.mzML
FILES
tho6 300uE_168h_13_2-E,3_01_10038.mzML
FILES
tho6 300uE_168h_14_2-E,4_01_10039.mzML
FILES
tho6 300uE_168h_15_2-E,5_01_10040.mzML
FILES
tho6 300uE_168h_1_1-C,4_01_7071.mzML
FILES
tho6 300uE_168h_1_2-C,7_01_10026.mzML
FILES
tho6 300uE_168h_2_1-C,5_01_7072.mzML
FILES
tho6 300uE_168h_2_2-C,8_01_10027.mzML
FILES
tho6 300uE_168h_3_1-C,6_01_7073.mzML
FILES
tho6 300uE_168h_3_2-D,1_01_10028.mzML
FILES
tho6 300uE_168h_4_2-D,2_01_10029.mzML
FILES
tho6 300uE_168h_5_2-D,3_01_10030.mzML
FILES
tho6 300uE_168h_6_2-D,4_01_10031.mzML
FILES
tho6 300uE_168h_7_2-D,5_01_10032.mzML
FILES
tho6 300uE_168h_8_2-D,6_01_10033.mzML
FILES
tho6 300uE_168h_9_2-D,7_01_10034.mzML
FILES
tho6 3_2-B,6_01_4245.mzML
FILES
tho6 4_2-B,7_01_4246.mzML
FILES
tho6 5_2-B,8_01_4247.mzML
FILES
tho6 6_2-C,1_01_4250.mzML
FILES
tho6 7_2-C,2_01_4251.mzML
FILES
tho6 8_2-C,3_01_4252.mzML
FILES
tho6 9_2-C,4_01_4253.mzML
FILES
tho6_300uE_0h_10_2-B,2_01_9909.mzML
FILES
tho6_300uE_0h_11_2-B,3_01_9910.mzML
FILES
tho6_300uE_0h_12_2-B,4_01_9911.mzML
FILES
tho6_300uE_0h_13_2-B,5_01_9912.mzML
FILES
tho6_300uE_0h_14_2-B,6_01_9913.mzML
FILES
tho6_300uE_0h_15_2-B,7_01_9914.mzML
FILES
tho6_300uE_0h_1_2-A,1_01_9900.mzML
FILES
tho6_300uE_0h_2_2-A,2_01_9901.mzML
FILES
tho6_300uE_0h_3_2-A,3_01_9902.mzML
FILES
tho6_300uE_0h_4_2-A,4_01_9903.mzML
FILES
tho6_300uE_0h_5_2-A,5_01_9904.mzML
FILES
tho6_300uE_0h_6_2-A,6_01_9905.mzML
FILES
tho6_300uE_0h_7_2-A,7_01_9906.mzML
FILES
tho6_300uE_0h_8_2-A,8_01_9907.mzML
FILES
tho6_300uE_0h_9_2-B,1_01_9908.mzML
FILES
tho7a 10_1-A,8_01_4177.mzML
FILES
tho7a 11_1-B,1_01_4180.mzML
FILES
tho7a 1_2-F,6_01_4166.mzML
FILES
tho7a 2_2-F,7_01_4167.mzML
FILES
tho7a 300uE_168h_1_1-C,7_01_7074.mzML
FILES
tho7a 300uE_168h_2_1-C,8_01_7075.mzML
FILES
tho7a 300uE_168h_3_1-D,1_01_7077.mzML
FILES
tho7a 3_2-F,8_01_4168.mzML
FILES
tho7a 4_1-A,2_01_4171.mzML
FILES
tho7a 5_1-A,3_01_4172.mzML
FILES
tho7a 6_1-A,4_01_4173.mzML
FILES
tho7a 7_1-A,5_01_4174.mzML
FILES
tho7a 8_1-A,6_01_4175.mzML
FILES
tho7a 9_1-A,7_01_4176.mzML
FILES
tho7b 10_2-F,4_01_4164.mzML
FILES
tho7b 11_2-F,5_01_4165.mzML
FILES
tho7b 1_2-E,3_01_4153.mzML
FILES
tho7b 2_2-E,4_01_4154.mzML
FILES
tho7b 300uE_168h_1_1-D,2_01_7078.mzML
FILES
tho7b 300uE_168h_2_1-D,3_01_7079.mzML
FILES
tho7b 300uE_168h_3_1-D,4_01_7080.mzML
FILES
tho7b 3_2-E,5_01_4155.mzML
FILES
tho7b 4_2-E,6_01_4156.mzML
FILES
tho7b 5_2-E,7_01_4157.mzML
FILES
tho7b 6_2-E,8_01_4158.mzML
FILES
tho7b 7_2-F,1_01_4161.mzML
FILES
tho7b 8_2-F,2_01_4162.mzML
FILES
tho7b 9_2-F,3_01_4163.mzML
FILES
transposon 10_1-C,3_01_4192.mzML
FILES
transposon 11_1-C,4_01_4193.mzML
FILES
transposon 12_1-C,5_01_4194.mzML
FILES
transposon 13_1-C,6_01_4195.mzML
FILES
transposon 1_1-B,2_01_4181.mzML
FILES
transposon 2_1-B,3_01_4182.mzML
FILES
transposon 3_1-B,4_01_4183.mzML
FILES
transposon 4_1-B,5_01_4184.mzML
FILES
transposon 5_1-B,6_01_4185.mzML
FILES
transposon 6_1-B,7_01_4186.mzML
FILES
transposon 7_1-B,8_01_4187.mzML
FILES
transposon 8_1-C,1_01_4190.mzML
FILES
transposon 9_1-C,2_01_4191.mzML
FILES
unknown protein 10_2-D,8_01_4148.mzML
FILES
unknown protein 11_2-E,1_01_4151.mzML
FILES
unknown protein 12_2-E,2_01_4152.mzML
FILES
unknown protein 1_2-C,7_01_4128.mzML
FILES
unknown protein 2_2-C,8_01_4129.mzML
FILES
unknown protein 3_2-D,1_01_4141.mzML
FILES
unknown protein 4_2-D,2_01_4142.mzML
FILES
unknown protein 5_2-D,3_01_4143.mzML
FILES
unknown protein 6_2-D,4_01_4144.mzML
FILES
unknown protein 7_2-D,5_01_4145.mzML
FILES
unknown protein 8_2-D,6_01_4146.mzML
FILES
unknown protein 9_2-D,7_01_4147.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Stress
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 34%|███▍      | 568/1674 [1:10:23<2:46:21,  9.02s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 34%|███▍      | 569/1674 [1:10:29<2:31:29,  8.23s/it]
 34%|███▍      | 570/1674 [1:10:31<1:54:40,  6.23s/it]
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_Stress duration
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Is Descendant
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Medium additive
IGNORED:  Assay_Column model
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 547 rows!
Added 547 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS390
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  : missing value
IonizationSourceAndPolarity:
  : missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
WB_060212_ASWAT_06.cdf
FILES
WB_060212_ASWAT_07.cdf
FILES
WB_060212_ASWAT_08.cdf
FILES
WB_060212_ASWAT_09.cdf
FILES
WB_060212_ASWAT_10.cdf
FILES
WB_060212_ASWAT_11.cdf
FILES
WB_060212_ASWAT_12.cdf
FILES
WB_060212_ASWAT_13.cdf
FILES
WB_060212_ASWAT_14.cdf
FILES
WB_060212_ASWAT_15.cdf
FILES
WB_060212_ASWAT_17.cdf
FILES
WB_060212_ASWAT_18.cdf
FILES
WB_060212_ASWAT_19.cdf
FILES
WB_060212_ASWAT_20.cdf
FILES
WB_060212_ASWAT_21.cdf
FILES
WB_060212_ASWAT_22.cdf
FILES
WB_060212_ASWAT_23.cdf
FILES
WB_060212_ASWAT_24.cdf
FILES
WB_060212_ASWAT_25.cdf
FILES
WB_060212_ASWAT_26.cdf
FILES
WB_060212_ASWAT_28.cdf
FILES
WB_060212_ASWAT_29.cdf
FILES
WB_060212_ASWAT_30.cdf
FILES
WB_060212_ASWAT_31.cdf
FILES
WB_060212_ASWAT_32.cdf
FILES
WB_060212_ASWAT_33.cdf
FILES
WB_060212_ASWAT_34.cdf
FILES
WB_060212_ASWAT_35.cdf
FILES
WB_060212_ASWAT_36.cdf
FILES
WB_060212_ASWAT_37.cdf
FILES
WB_060212_ASWAT_39.cdf
FILES
WB_060212_ASWAT_40.cdf
FILES
WB_060212_ASWAT_41.cdf
FILES
WB_060212_ASWAT_42.cdf
FILES
WB_060212_ASWAT_43.cdf
FILES
WB_060212_ASWAT_44.cdf
FILES
WB_060212_ASWAT_45.cdf
FILES
WB_060212_ASWAT_46.cdf
FILES
WB_060212_ASWAT_47.cdf
FILES
WB_060212_ASWAT_48.cdf
FILES
WB_060212_ASWAT_50.cdf
FILES
WB_060212_ASWAT_51.cdf
FILES
WB_060212_ASWAT_52.cdf
FILES
WB_060212_ASWAT_53.cdf
FILES
WB_060212_ASWAT_54.cdf
FILES
WB_060212_ASWAT_55.cdf
FILES
WB_060212_ASWAT_56.cdf
FILES
WB_060212_ASWAT_57.cdf
FILES
WB_CC_BAT_06.cdf
FILES
WB_CC_BAT_07.cdf
FILES
WB_CC_BAT_08.cdf
FILES
WB_CC_BAT_09.cdf
FILES
WB_CC_BAT_10.cdf
FILES
WB_CC_BAT_11.cdf
FILES
WB_CC_BAT_12.cdf
FILES
WB_CC_BAT_13.cdf
FILES
WB_CC_BAT_14.cdf
FILES
WB_CC_BAT_15.cdf
FILES
WB_CC_BAT_17.cdf
FILES
WB_CC_BAT_18.cdf
FILES
WB_CC_BAT_19.cdf
FILES
WB_CC_BAT_20.cdf
FILES
WB_CC_BAT_21.cdf
FILES
WB_CC_BAT_22.cdf
FILES
WB_CC_BAT_23.cdf
FILES
WB_CC_BAT_24.cdf
FILES
WB_CC_BAT_25.cdf
FILES
WB_CC_BAT_26.cdf
FILES
WB_CC_BAT_28.cdf
FILES
WB_CC_BAT_29.cdf
FILES
WB_CC_BAT_30.cdf
FILES
WB_CC_BAT_31.cdf
FILES
WB_CC_BAT_32.cdf
FILES
WB_CC_BAT_33.cdf
FILES
WB_CC_BAT_34.cdf
FILES
WB_CC_BAT_35.cdf
FILES
WB_CC_BAT_36.cdf
FILES
WB_CC_BAT_37.cdf
FILES
WB_CC_BAT_39.cdf
FILES
WB_CC_BAT_40.cdf
FILES
WB_CC_BAT_41.cdf
FILES
WB_CC_BAT_42.cdf
FILES
WB_CC_BAT_43.cdf
FILES
WB_CC_BAT_44.cdf
FILES
WB_CC_BAT_45.cdf
FILES
WB_CC_BAT_46.cdf
FILES
WB_CC_BAT_47.cdf
FILES
WB_CC_BAT_48.cdf
FILES
WB_CC_BAT_50.cdf
FILES
WB_CC_BAT_51.cdf
FILES
WB_CC_BAT_52.cdf
FILES
WB_CC_BAT_53.cdf
FILES
WB_CC_BAT_54.cdf
FILES
WB_CC_BAT_55.cdf
FILES
WB_CC_BAT_56.cdf
FILES
WB_CC_BAT_57.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Unit
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_tissue type
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Temperature
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_genotype
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_sampling time
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Detector
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS391
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS392
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus IV: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
TC_mosto_CM1_8_1_1.cdf
FILES
TC_mosto_CM2_8_1_1.cdf
FILES
TC_mosto_CM3_8_1_1.cdf
FILES
TC_mosto_CP1_8_1_1.cdf
FILES
TC_mosto_CP2_8_1_1.cdf
FILES
TC_mosto_CP3_8_1_1.cdf
FILES
TC_mosto_LM1_8_1_1.cdf
FILES
TC_mosto_LM2_8_1_1.cdf
FILES
TC_mosto_LM3_8_1_1.cdf
FILES
TC_mosto_LP1_8_1_1.cdf
FILES
TC_mosto_LP2_8_1_1.cdf
FILES
TC_mosto_LP3_8_1_1.cdf
FILES
TC_uva_1C1_1.cdf
FILES
TC_uva_1C2_1.cdf
FILES
TC_uva_1C3_1.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 34%|███▍      | 571/1674 [1:10:35<1:46:26,  5.79s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 34%|███▍      | 572/1674 [1:10:41<1:43:32,  5.64s/it]
 34%|███▍      | 573/1674 [1:10:45<1:38:16,  5.36s/it]
 34%|███▍      | 574/1674 [1:10:50<1:34:54,  5.18s/it]
FILES
TC_uva_1C5_1.cdf
FILES
TC_uva_1G1_1.cdf
FILES
TC_uva_1G2_1.cdf
FILES
TC_uva_1G3_1.cdf
FILES
TC_uva_1G4_1.cdf
FILES
TL_1G1_uva_1.cdf
FILES
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FILES
TL_1G3_uva_1.cdf
FILES
TL_1G4_uva_1.cdf
FILES
TL_2C1_uva_1.cdf
FILES
TL_2C2_uva_1.cdf
FILES
TL_2C3_uva_1.cdf
FILES
TL_2C5_uva_1.cdf
FILES
TL_mosto_CM1_T0_1.cdf
FILES
TL_mosto_CM2_T0_1.cdf
FILES
TL_mosto_CM3_T0_1.cdf
FILES
TL_mosto_CP1_T0_2.cdf
FILES
TL_mosto_CP2_T0_1.cdf
FILES
TL_mosto_CP3_T0_1.cdf
FILES
TL_mosto_LM1_T0_1.cdf
FILES
TL_mosto_LM2_T0_1.cdf
FILES
TL_mosto_LM3_T0_1.cdf
FILES
TL_mosto_LP1_T0_1.cdf
FILES
TL_mosto_LP2_T0_1.cdf
FILES
TL_mosto_LP3_T0_1.cdf
FILES
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FILES
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FILES
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FILES
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Number of rows removed due to not enough metadata: 0
Returning 44 rows!
Added 44 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS393
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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11_1.cdf
FILES
12_1.cdf
FILES
13_1.cdf
FILES
14_1.cdf
FILES
15_1.cdf
FILES
16_1.cdf
FILES
17_1.cdf
FILES
18_1.cdf
FILES
19_1.cdf
FILES
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FILES
20_1.cdf
FILES
21_1.cdf
FILES
22_1.cdf
FILES
23_1.cdf
FILES
24_1.cdf
FILES
25_1.cdf
FILES
26_1.cdf
FILES
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FILES
28_1.cdf
FILES
29_1.cdf
FILES
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FILES
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FILES
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FILES
32_1.cdf
FILES
33_1.cdf
FILES
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FILES
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FILES
36_1.cdf
FILES
37_1.cdf
FILES
38_1.cdf
FILES
39_1.cdf
FILES
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FILES
40_1.cdf
FILES
41_1.cdf
FILES
42_1.cdf
FILES
43_1.cdf
FILES
44_1.cdf
FILES
45_1.cdf
FILES
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FILES
47_1.cdf
FILES
48_1.cdf
FILES
49_1.cdf
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
54_1.cdf
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
QC2_2.cdf
FILES
QC2_3.cdf
FILES
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FILES
QC4_1.cdf
FILES
QC5_1.cdf
FILES
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FILES
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FILES
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Number of rows removed due to not enough metadata: 0
Returning 82 rows!
Added 82 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS394
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS395
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS179
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
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IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
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IGNORED:  Assay_Term Source REF.16
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 34%|███▍      | 575/1674 [1:10:59<1:55:19,  6.30s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
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Number of rows removed due to not enough metadata: 0
Returning 128 rows!
Added 128 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2993
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
FILES
DERIVED_FILES
Quantitative data-CK-1.mzML
FILES
DERIVED_FILES
Quantitative data-CK-2.mzML
FILES
DERIVED_FILES
Quantitative data-CK-3.mzML
FILES
DERIVED_FILES
Quantitative data-ET-1.mzML
FILES
DERIVED_FILES
Quantitative data-ET-2.mzML
FILES
DERIVED_FILES
Quantitative data-ET-3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS396
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS306
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CE04.raw
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CE53.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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CE99.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 1
Returning 128 rows!
Added 128 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS397
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS26
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20100126_PLneg-34.RAW
FILES
20100126_PLneg-35.RAW
FILES
20100126_PLneg-36.RAW
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20100126_PLneg-37.RAW
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20100126_PLneg-38.RAW
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20100126_PLneg-42.RAW
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20100126_PLpos-34.RAW
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20100126_PLpos-38.RAW
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20100126_PLpos-40.RAW
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20100126_PLpos-41.RAW
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20100126_PLpos-42.RAW
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20100126_TAG-34.RAW
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20100126_TAG-35.RAW
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20100126_TAG-36.RAW
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20100126_TAG-39.RAW
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20100126_TAG-40.RAW
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20100126_TAG-41.RAW
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20100126_TAG-42.RAW
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20100629_PL-70-Pos.RAW
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20100629_PL-70-neg.RAW
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20100629_PL-71-Pos.RAW
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20100629_PL-78-neg.RAW
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20100629_TAG-70.RAW
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20100629_TAG-78.RAW
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Nutritional status
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS399
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS400
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4082
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 35%|███▍      | 583/1674 [1:11:31<1:16:00,  4.18s/it]
  nan: missing value
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Number of rows removed due to not enough metadata: 0
Returning 128 rows!
Added 128 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS409
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 35%|███▍      | 584/1674 [1:11:37<1:29:15,  4.91s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 35%|███▍      | 585/1674 [1:11:44<1:36:46,  5.33s/it]
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX TripleTOF 6600+: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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Number of rows removed due to not enough metadata: 0
Returning 44 rows!
Added 44 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS410
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 44 rows!
Added 44 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS413
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
  QExactive (Thermo Scientific): missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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PLASMA_Std_2_1_NEG.mzML
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PLASMA_pool_5_NEG.mzML
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PLASMA_pool_6_NEG.mzML
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PLASMA_pool_7_NEG.mzML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Samples_Sample type_1
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 24
Returning 336 rows!
Added 336 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS264
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_sample material
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 35%|███▌      | 587/1674 [1:12:01<2:05:22,  6.92s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 35%|███▌      | 588/1674 [1:12:07<1:58:02,  6.52s/it]
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Samples_Sample Name
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS423
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  filename_lower
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IGNORED:  base
IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 70 rows!
Added 70 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS429
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS431
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS265
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
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FILES
Person14_blood_youth_POS.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 35%|███▌      | 591/1674 [1:12:15<1:17:33,  4.30s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 35%|███▌      | 592/1674 [1:12:22<1:31:52,  5.09s/it]
FILES
Person15_blood_youth_NEG.mzML
FILES
Person15_blood_youth_POS.mzML
FILES
Person16_blood_youth_NEG.mzML
FILES
Person16_blood_youth_POS.mzML
FILES
Person17_blood_youth_NEG.mzML
FILES
Person17_blood_youth_POS.mzML
FILES
Person18_blood_elder_NEG.mzML
FILES
Person18_blood_elder_POS.mzML
FILES
Person19_blood_elder_NEG.mzML
FILES
Person19_blood_elder_POS.mzML
FILES
Person20_blood_youth_NEG.mzML
FILES
Person20_blood_youth_POS.mzML
FILES
Person21_blood_youth_NEG.mzML
FILES
Person21_blood_youth_POS.mzML
FILES
Person22_blood_elder_NEG.mzML
FILES
Person22_blood_elder_POS.mzML
FILES
Person23_blood_elder_NEG.mzML
FILES
Person23_blood_elder_POS.mzML
FILES
Person24_blood_elder_NEG.mzML
FILES
Person24_blood_elder_POS.mzML
FILES
Person25_blood_elder_NEG.mzML
FILES
Person25_blood_elder_POS.mzML
FILES
Person26_blood_elder_NEG.mzML
FILES
Person26_blood_elder_POS.mzML
FILES
Person27_blood_youth_NEG.mzML
FILES
Person27_blood_youth_POS.mzML
FILES
Person28_blood_youth_NEG.mzML
FILES
Person28_blood_youth_POS.mzML
FILES
Person29_blood_elder_NEG.mzML
FILES
Person29_blood_elder_POS.mzML
FILES
Person30_blood_elder_NEG.mzML
FILES
Person30_blood_elder_POS.mzML
IGNORED:  Samples_Age group
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Subject
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS328
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
KG_Bac_P_5_anaeroLGG_1.cdf
FILES
KG_Bac_P_5_anaeroLGG_2.cdf
FILES
KG_Bac_P_6_anaeroLGG_1.cdf
FILES
KG_Bac_P_6_anaeroLGG_2.cdf
FILES
KG_Bac_P_7_anaeroLGG_1.cdf
FILES
KG_Bac_P_7_anaeroLGG_2.cdf
FILES
KG_Caco2_P_13_Coculture_1.cdf
FILES
KG_Caco2_P_13_Coculture_2.cdf
FILES
KG_Caco2_P_14_Coculture_1.cdf
FILES
KG_Caco2_P_14_Coculture_2.cdf
FILES
KG_Caco2_P_15_Coculture_1.cdf
FILES
KG_Caco2_P_15_Coculture_2.cdf
FILES
KG_caco2_anerococult_P_108_1.cdf
FILES
KG_caco2_anerococult_P_108_2.cdf
FILES
PS_LGG_P_79_1.cdf
FILES
PS_LGG_P_79_2.cdf
FILES
PS_LGG_P_83_1.cdf
FILES
PS_LGG_P_83_2.cdf
FILES
PS_LGG_P_91_1.cdf
FILES
PS_LGG_P_91_2.cdf
FILES
PS_caco2_anerococult_P_79_1.cdf
FILES
PS_caco2_anerococult_P_79_2.cdf
FILES
PS_caco2_anerococult_P_91_1.cdf
FILES
PS_caco2_anerococult_P_91_2.cdf
FILES
PS_caco2_aneroctrl_P_56_1.cdf
FILES
PS_caco2_aneroctrl_P_56_2.cdf
FILES
PS_caco2_aneroctrl_P_87_1.cdf
FILES
PS_caco2_aneroctrl_P_87_2.cdf
FILES
PS_caco2_aneroctrl_P_88_1.cdf
FILES
PS_caco2_aneroctrl_P_88_2.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_anaerobic
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_control
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_coculture
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Caco2
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Lactobacillus rhamnosus LGG
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_Bacteroides caccae
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 12
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS437
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 35%|███▌      | 593/1674 [1:12:27<1:28:28,  4.91s/it]
 35%|███▌      | 594/1674 [1:12:28<1:11:27,  3.97s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 36%|███▌      | 595/1674 [1:12:35<1:23:40,  4.65s/it]
 36%|███▌      | 596/1674 [1:12:37<1:10:56,  3.95s/it]
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters GCT Premier: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
MR-CTB51A_REPLICATE1_LP.CDF
FILES
MR-CTB51A_REPLICATE1_PP.CDF
FILES
MR-CTB51A_REPLICATE2_LP.CDF
FILES
MR-CTB51A_REPLICATE2_PP.CDF
FILES
MR-CTB51A_REPLICATE3_LP.CDF
FILES
MR-CTB51A_REPLICATE3_PP.CDF
FILES
MR-CTB51A_REPLICATE4_LP.CDF
FILES
MR-CTB51A_REPLICATE4_PP.CDF
FILES
MR-RNAI_REPLICATE1_LP.CDF
FILES
MR-RNAI_REPLICATE1_PP.CDF
FILES
MR-RNAI_REPLICATE2_LP.CDF
FILES
MR-RNAI_REPLICATE2_PP.CDF
FILES
MR-RNAI_REPLICATE3_LP.CDF
FILES
MR-RNAI_REPLICATE3_PP.CDF
FILES
MR-RNAI_REPLICATE4_LP.CDF
FILES
MR-RNAI_REPLICATE4_PP.CDF
FILES
MR-RNAI_REPLICATE5_LP.CDF
FILES
MR-RNAI_REPLICATE5_PP.CDF
FILES
NPB-HP_REPLICATE1_LP.CDF
FILES
NPB-HP_REPLICATE1_PP.CDF
FILES
NPB-HP_REPLICATE2_LP.CDF
FILES
NPB-HP_REPLICATE2_PP.CDF
FILES
NPB-HP_REPLICATE3_LP.CDF
FILES
NPB-HP_REPLICATE3_PP.CDF
FILES
NPB-HP_REPLICATE4_LP.CDF
FILES
NPB-HP_REPLICATE4_PP.CDF
FILES
NPB-HP_REPLICATE5_LP.CDF
FILES
NPB-HP_REPLICATE5_PP.CDF
FILES
NPB-PF_REPLICATE1_LP.CDF
FILES
NPB-PF_REPLICATE1_PP.CDF
FILES
NPB-PF_REPLICATE2_LP.CDF
FILES
NPB-PF_REPLICATE2_PP.CDF
FILES
NPB-PF_REPLICATE3_LP.CDF
FILES
NPB-PF_REPLICATE3_PP.CDF
FILES
NPB-PF_REPLICATE4_LP.CDF
FILES
NPB-PF_REPLICATE4_PP.CDF
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Cultivation technique
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Gene suppression
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Postharvest handling
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Selection marker gene
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  Samples_Protein overexpression
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS331
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS450
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters LCT Premier: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
10001.CDF
FILES
10101.CDF
FILES
10301.CDF
FILES
10401.CDF
FILES
10501.CDF
FILES
10601.CDF
FILES
10801.CDF
FILES
2501.CDF
FILES
2601.CDF
FILES
2701.CDF
FILES
2801.CDF
FILES
2901.CDF
FILES
3001.CDF
FILES
3101.CDF
FILES
3201.CDF
FILES
3301.CDF
FILES
3401.CDF
FILES
3501.CDF
FILES
3601.CDF
FILES
3701.CDF
FILES
3801.CDF
FILES
3901.CDF
FILES
4001.CDF
FILES
4101.CDF
FILES
4201.CDF
FILES
4301.CDF
FILES
4401.CDF
FILES
4501.CDF
FILES
4601.CDF
FILES
4701.CDF
FILES
4801.CDF
FILES
4901.CDF
FILES
5001.CDF
FILES
5101.CDF
FILES
5201.CDF
FILES
5301.CDF
FILES
5401.CDF
FILES
5501.CDF
FILES
5601.CDF
FILES
5701.CDF
FILES
5801.CDF
FILES
5901.CDF
FILES
6001.CDF
FILES
6101.CDF
FILES
6201.CDF
FILES
6301.CDF
FILES
6401.CDF
FILES
6501.CDF
FILES
6601.CDF
FILES
6701.CDF
FILES
6801.CDF
FILES
6901.CDF
FILES
7001.CDF
FILES
7101.CDF
FILES
7201.CDF
FILES
7301.CDF
FILES
7401.CDF
FILES
7501.CDF
FILES
7601.CDF
FILES
7701.CDF
FILES
7801.CDF
FILES
7901.CDF
FILES
8001.CDF
FILES
8101.CDF
FILES
8201.CDF
FILES
8301.CDF
FILES
8401.CDF
FILES
8501.CDF
FILES
8601.CDF
FILES
8701.CDF
FILES
8801.CDF
FILES
8901.CDF
FILES
9001.CDF
FILES
9101.CDF
FILES
9201.CDF
FILES
9301.CDF
FILES
9401.CDF
FILES
9501.CDF
FILES
9601.CDF
FILES
9701.CDF
FILES
9801.CDF
FILES
9901.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Protocol REF.5
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Mediator Arabidopsis complex
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 82 rows!
Added 82 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS457
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS461
Request successful!
SampleCollectionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
  Thermo Scientific TSQ Vantage: missing value
FILES
mtab_dilution_ft_59.RAW
FILES
mtab_dilution_ft_59.RAW
FILES
mtab_dilution_ft_61.RAW
FILES
mtab_dilution_ft_61.RAW
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mtab_dilution_ft_64.RAW
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mtab_dilution_ft_64.RAW
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mtab_dilution_ft_65.RAW
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mtab_dilution_ft_65.RAW
FILES
mtab_dilution_ft_71.RAW
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mtab_dilution_ft_71.RAW
FILES
mtab_dilution_ft_76.RAW
FILES
mtab_dilution_ft_76.RAW
FILES
mtab_dilution_ft_78.RAW
FILES
mtab_dilution_ft_78.RAW
FILES
mtab_dilution_ft_79.RAW
FILES
mtab_dilution_ft_79.RAW
FILES
mtab_dilution_ft_82.RAW
FILES
mtab_dilution_ft_82.RAW
FILES
mtab_dilution_ft_86.RAW
FILES
mtab_dilution_ft_86.RAW
FILES
mtab_dilution_ft_87.RAW
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mtab_dilution_ft_87.RAW
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mtab_dilution_ft_89.RAW
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mtab_dilution_ft_89.RAW
FILES
mtab_dilution_ft_94.RAW
FILES
mtab_dilution_ft_94.RAW
FILES
mtab_dilution_ft_95.RAW
FILES
mtab_dilution_ft_95.RAW
FILES
mtab_dilution_ft_98.RAW
FILES
mtab_dilution_ft_98.RAW
FILES
mtab_grazing_tsq_34.raw
FILES
mtab_grazing_tsq_34.raw
FILES
mtab_grazing_tsq_35.raw
FILES
mtab_grazing_tsq_35.raw
FILES
mtab_grazing_tsq_42.raw
FILES
mtab_grazing_tsq_42.raw
FILES
mtab_grazing_tsq_43.raw
FILES
mtab_grazing_tsq_43.raw
FILES
mtab_grazing_tsq_46.raw
FILES
mtab_grazing_tsq_46.raw
FILES
mtab_grazing_tsq_50.raw
FILES
mtab_grazing_tsq_50.raw
FILES
mtab_grazing_tsq_51.raw
FILES
mtab_grazing_tsq_51.raw
FILES
mtab_grazing_tsq_54.raw
FILES
mtab_grazing_tsq_54.raw
FILES
mtab_grazing_tsq_55.raw
FILES
mtab_grazing_tsq_55.raw
FILES
mtab_grazing_tsq_59.raw
FILES
mtab_grazing_tsq_59.raw
FILES
mtab_grazing_tsq_63.raw
FILES
mtab_grazing_tsq_63.raw
FILES
mtab_grazing_tsq_68.raw
FILES
mtab_grazing_tsq_68.raw
FILES
mtab_grazing_tsq_70.raw
FILES
mtab_grazing_tsq_70.raw
FILES
mtab_grazing_tsq_71.raw
FILES
mtab_grazing_tsq_71.raw
FILES
mtab_grazing_tsq_74.raw
FILES
mtab_grazing_tsq_74.raw
IGNORED:  Samples_Whole seawater
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS140
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
  Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
001_CRa_H9M5_M470_Blank_01_high_neg.mzML
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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044_CRa_H9M5_M470_L14_K1_high_neg.mzML
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044_CRa_H9M5_M470_L14_K1_high_pos.mzML
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044_CRa_H9M5_M470_L14_K1_low_neg.mzML
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044_CRa_H9M5_M470_L14_K1_low_pos.mzML
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046_CRa_H9M5_M470_H03_K3_low_pos.mzML
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047_CRa_H9M5_M470_Blank_11_low_neg.mzML
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047_CRa_H9M5_M470_Blank_11_low_pos.mzML
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Number of rows removed due to not enough metadata: 68
Returning 108 rows!
Added 108 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS465
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS470
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS476
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  row_id/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 36%|███▌      | 601/1674 [1:13:03<1:32:06,  5.15s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 36%|███▌      | 602/1674 [1:13:10<1:41:23,  5.68s/it]
 36%|███▌      | 603/1674 [1:13:11<1:17:19,  4.33s/it]
Number of rows removed due to not enough metadata: 0
Returning 236 rows!
Added 236 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS479
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Samples_Term Accession Number.6
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Number of rows removed due to not enough metadata: 9
Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS482
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS493
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2 QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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CHOK1_SH87_QC_PosLipid_dataS00R7.mzXML
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CHOK1_SH87_QC_PosLipid_dataS00R8.mzXML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Organism/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Is Fluid
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Number of rows removed due to not enough metadata: 0
Returning 64 rows!
Added 64 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS494
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS497
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
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IGNORED:  Assay_Protocol REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Sample type
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 12
Returning 128 rows!
Added 128 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS349
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS517
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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VT_140611_051.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 36%|███▋      | 608/1674 [1:14:03<3:53:24, 13.14s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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VT_140611_126.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Batch run order
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Samples_Time Point
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
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IGNORED:  filepath
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Run order
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 1716 rows!
Added 1716 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS519
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C inert XL MSD: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
040616A_003.CDF
FILES
040616A_004.CDF
FILES
040616A_005.CDF
FILES
040616A_006.CDF
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040616A_007.CDF
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040616A_008.CDF
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040616A_047.CDF
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040616A_048.CDF
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040616A_049.CDF
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040616A_050.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Sample type_1
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Time elapsed
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS524
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS526/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
FILES
Lemna_27_CON_1_1.CDF
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Lemna_27_CON_1_2.CDF
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Lemna_27_CON_2_1.CDF
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Sampling time
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Assay_Label
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Coronatine treatment
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS541
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS544
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker maXis impact UHR-QTOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
10A_Pla_lan_AG_RA8_01_2087_55_to_790.mzXML
FILES
10A_Pla_lan_BG_RA8_01_2182_55_to_790.mzXML
FILES
10B_Pla_lan_AG_RC7_01_2024_55_to_790.mzXML
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
10G_Pla_lan_AG_REP_RA8_01_2266_55_to_790.mzXML
FILES
10G_Pla_lan_BG_BC5_01_2146_55_to_790.mzXML
FILES
10H_Pla_lan_AG_BE4_01_2026_55_to_790.mzXML
FILES
10H_Pla_lan_BG_BE4_01_2144_55_to_790.mzXML
FILES
13A_Cen_jac_AG_RB1_01_2012_55_to_790.mzXML
FILES
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FILES
13B_Cen_jac_AG_RC8_01_2075_55_to_790.mzXML
FILES
13B_Cen_jac_BG_RC8_01_2157_55_to_790.mzXML
FILES
13C_Cen_jac_AG_RE8_01_1974_55_to_790.mzXML
FILES
13C_Cen_jac_BG_RE8_01_2181_55_to_790.mzXML
FILES
13D_Cen_jac_AG_RE8_01_2110_55_to_790.mzXML
FILES
13D_Cen_jac_BG_GB7_01_2247_55_to_790.mzXML
FILES
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FILES
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FILES
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FILES
13F_Cen_jac_BG_BA7_01_2162_55_to_790.mzXML
FILES
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FILES
13G_Cen_jac_BG_BC6_01_2234_55_to_790.mzXML
FILES
13H_Cen_jac_AG_BE5_01_2019_55_to_790.mzXML
FILES
13H_Cen_jac_BG_BE5_01_2205_55_to_790.mzXML
FILES
14A_Kna_arv_AG_RB2_01_2090_55_to_790.mzXML
FILES
14A_Kna_arv_BG_RB2_01_2149_55_to_790.mzXML
FILES
14B_Kna_arv_AG_RD1_01_2027_55_to_790.mzXML
FILES
14B_Kna_arv_BG_RD1_01_2211_55_to_790.mzXML
FILES
14C_Kna_arv_AG_GA1_01_1991_55_to_790.mzXML
FILES
14C_Kna_arv_BG_GA1_01_2200_55_to_790.mzXML
FILES
14D_Kna_arv_AG_GB8_01_2039_55_to_790.mzXML
FILES
14D_Kna_arv_BG_GB8_01_2203_55_to_790.mzXML
FILES
14E_Kna_arv_AG_GE1_01_2046_55_to_790.mzXML
FILES
14E_Kna_arv_BG_GE1_01_2210_55_to_790.mzXML
FILES
14F_Kna_arv_AG_BA8_01_1990_55_to_790.mzXML
FILES
14F_Kna_arv_BG_BA8_01_2180_55_to_790.mzXML
FILES
14G_Kna_arv_AG_BC7_01_2033_55_to_790.mzXML
FILES
14G_Kna_arv_BG_BC7_01_2236_55_to_790.mzXML
FILES
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9D_Leu_vul_AG_GB5_01_2093_55_to_790.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Inoculation date
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Growth condition
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Geographical location
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Herbivory
IGNORED:  Samples_Sample date
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Growth chamber
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 244 rows!
Added 244 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS546
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS548
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS555
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS558
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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ChromatographyAndPhase:
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UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Samples_Sample Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 37%|███▋      | 617/1674 [1:14:51<2:12:33,  7.52s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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 37%|███▋      | 619/1674 [1:14:57<1:29:12,  5.07s/it]
IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 325 rows!
Added 325 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS566
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Rhodiola_crown.mzML
FILES
Rhodiola_root.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 2 rows!
Added 2 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS572
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2782
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Control-10_neg.raw
FILES
Control-10_pos.raw
FILES
Control-1_neg.raw
FILES
Control-1_pos.raw
FILES
Control-2_neg.raw
FILES
Control-2_pos.raw
FILES
Control-3_neg.raw
FILES
Control-3_pos.raw
FILES
Control-4_neg.raw
FILES
Control-4_pos.raw
FILES
Control-5_neg.raw
FILES
Control-5_pos.raw
FILES
Control-6_neg.raw
FILES
Control-6_pos.raw
FILES
Control-7_neg.raw
FILES
Control-7_pos.raw
FILES
Control-8_neg.raw
FILES
Control-8_pos.raw
FILES
Control-9_neg.raw
FILES
Control-9_pos.raw
FILES
PBA0-10_neg.raw
FILES
PBA0-10_pos.raw
FILES
PBA0-1_neg.raw
FILES
PBA0-1_pos.raw
FILES
PBA0-2_neg.raw
FILES
PBA0-2_pos.raw
FILES
PBA0-3_neg.raw
FILES
PBA0-3_pos.raw
FILES
PBA0-4_neg.raw
FILES
PBA0-4_pos.raw
FILES
PBA0-5_neg.raw
FILES
PBA0-5_pos.raw
FILES
PBA0-6_neg.raw
FILES
PBA0-6_pos.raw
FILES
PBA0-7_neg.raw
FILES
PBA0-7_pos.raw
FILES
PBA0-8_neg.raw
FILES
PBA0-8_pos.raw
FILES
PBA0-9_neg.raw
FILES
PBA0-9_pos.raw
FILES
PBA0.1-10_neg.raw
FILES
PBA0.1-10_pos.raw
FILES
PBA0.1-1_neg.raw
FILES
PBA0.1-1_pos.raw
FILES
PBA0.1-2_neg.raw
FILES
PBA0.1-2_pos.raw
FILES
PBA0.1-3_neg.raw
FILES
PBA0.1-3_pos.raw
FILES
PBA0.1-4_neg.raw
FILES
PBA0.1-4_pos.raw
FILES
PBA0.1-5_neg.raw
FILES
PBA0.1-5_pos.raw
FILES
PBA0.1-6_neg.raw
FILES
PBA0.1-6_pos.raw
FILES
PBA0.1-7_neg.raw
FILES
PBA0.1-7_pos.raw
FILES
PBA0.1-8_neg.raw
FILES
PBA0.1-8_pos.raw
FILES
PBA0.1-9_neg.raw
FILES
PBA0.1-9_pos.raw
FILES
PBA1-1_neg.raw
FILES
PBA1-1_pos.raw
FILES
PBA1-2_neg.raw
FILES
PBA1-3_neg.raw
FILES
PBA1-3_pos.raw
FILES
PBA1-4_neg.raw
FILES
PBA1-4_pos.raw
FILES
PBA1-5_neg.raw
FILES
PBA1-5_pos.raw
FILES
PBA1-6_neg.raw
FILES
PBA1-6_pos.raw
FILES
PBA1-7_neg.raw
FILES
PBA1-7_pos.raw
FILES
PBA1-8_neg.raw
FILES
PBA1-8_pos.raw
FILES
PBA1-9_neg.raw
FILES
PBA1-9_pos.raw
FILES
PBA5-1_neg.raw
FILES
PBA5-1_pos.raw
FILES
PBA5-2_neg.raw
FILES
PBA5-2_pos.raw
FILES
PBA5-3_neg.raw
FILES
PBA5-3_pos.raw
FILES
PBA5-4_neg.raw
FILES
PBA5-4_pos.raw
FILES
PBA5-5_neg.raw
FILES
PBA5-5_pos.raw
FILES
PBA5-6_neg.raw
FILES
PBA5-6_pos.raw
FILES
PBA5-7_neg.raw
FILES
PBA5-7_pos.raw
FILES
PBA5-8_neg.raw
FILES
PBA5-8_pos.raw
FILES
PBA5-9_neg.raw
FILES
PBA5-9_pos.raw
FILES
QC1_neg.raw
FILES
QC1_pos.raw
FILES
QC2_neg.raw
FILES
QC2_pos.raw
FILES
QC3_neg.raw
FILES
QC3_pos.raw
FILES
QC4_neg.raw
FILES
QC4_pos.raw
FILES
QC5_neg.raw
FILES
QC5_pos.raw
FILES
QC6_neg.raw
FILES
QC6_pos.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 37%|███▋      | 620/1674 [1:15:03<1:33:14,  5.31s/it]
 37%|███▋      | 621/1674 [1:15:04<1:12:36,  4.14s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 37%|███▋      | 622/1674 [1:15:10<1:17:14,  4.41s/it]
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 107 rows!
Added 107 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS576
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS578
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20151104_1_cwh43(WT)_26C_neg.mzML
FILES
20151104_1_cwh43(WT)_26C_pos.mzML
FILES
20151104_2_cwh43(WT)_26C_neg.mzML
FILES
20151104_2_cwh43(WT)_26C_pos.mzML
FILES
20151104_5_cwh43(G753R)_26C_neg.mzML
FILES
20151104_5_cwh43(G753R)_26C_pos.mzML
FILES
20151104_6_cwh43(G753R)_26C_neg.mzML
FILES
20151104_6_cwh43(G753R)_26C_pos.mzML
FILES
20151105_3_cwh43(WT)_26C_neg.mzML
FILES
20151105_3_cwh43(WT)_26C_pos.mzML
FILES
20151105_4_cwh43(WT)_26C_neg.mzML
FILES
20151105_4_cwh43(WT)_26C_pos.mzML
FILES
20151105_7_cwh43(G753R)_26C_neg.mzML
FILES
20151105_7_cwh43(G753R)_26C_pos.mzML
FILES
20151105_8_cwh43(G753R)_26C_neg.mzML
FILES
20151105_8_cwh43(G753R)_26C_pos.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_genotype
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS579
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus 4D: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
01_GB_1.cdf
FILES
02_GB_1.cdf
FILES
03_GB_1.cdf
FILES
04_GB_1.cdf
FILES
05_GB_1.cdf
FILES
06_GB_1.cdf
FILES
07_GB_1.cdf
FILES
08_GB_1.cdf
FILES
09_GB_1.cdf
FILES
10_GB_1.cdf
FILES
11_GB_1.cdf
FILES
12_GB_1.cdf
FILES
13_GB_1.cdf
FILES
14_GB_1.cdf
FILES
15_GB_1.cdf
FILES
16_GB_1.cdf
FILES
17_GB_1.cdf
FILES
18_GB_1.cdf
FILES
19_GB_1.cdf
FILES
20_GB_1.cdf
FILES
21_GB_1.cdf
FILES
22_GB_1.cdf
FILES
23_GB_1.cdf
FILES
24_GB_1.cdf
FILES
25_GB_1.cdf
FILES
26_GB_1.cdf
FILES
27_GB_1.cdf
FILES
28_GB_1.cdf
FILES
29_GB_1.cdf
FILES
30_GB_1.cdf
FILES
31_GB_1.cdf
FILES
32_GB_1.cdf
FILES
33_GB_1.cdf
FILES
34_GB_1.cdf
FILES
35_GB_1.cdf
FILES
36_GB_1.cdf
FILES
37_GB_1.cdf
FILES
QC10_GB_1.cdf
FILES
QC11_GB_1.cdf
FILES
QC1_GB_1.cdf
FILES
QC2_GB_1.cdf
FILES
QC3_GB_1.cdf
FILES
QC4_GB_1.cdf
FILES
QC5_GB_1.cdf
FILES
QC6_GB_1.cdf
FILES
QC7_GB_1.cdf
FILES
QC8_GB_1.cdf
FILES
QC9_GB_1.cdf
IGNORED:  Samples_Gall stones
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Source REF.19
IGNORED:  Samples_Term Source REF.22
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.18
IGNORED:  Samples_Term Accession Number.24
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Lymphocytes
IGNORED:  Samples_Term Accession Number.31
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Term Accession Number.21
IGNORED:  Samples_Term Accession Number.25
IGNORED:  Assay_Term Source REF.8
IGNORED:  Samples_Analytical run order
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Column type 1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Unit.9
IGNORED:  Samples_Term Accession Number.17
IGNORED:  Samples_Unit.5
IGNORED:  Samples_Aspartate transaminase
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Accession Number.23
IGNORED:  Samples_Gallbladder tissue thickness
IGNORED:  Assay_Column model 2
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Source REF.10
IGNORED:  Samples_Monocytes
IGNORED:  Samples_Alkaline phosphatase
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Term Accession Number.20
IGNORED:  Samples_Term Source REF.17
IGNORED:  Samples_Unit.8
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Term Source REF.26
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Accession Number.19
IGNORED:  Samples_Term Accession Number.29
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Samples_Term Source REF.20
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.28
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Total cell count
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Treatment with inj. Cefazoline
IGNORED:  Samples_Term Accession Number.16
IGNORED:  Samples_Sample Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 37%|███▋      | 623/1674 [1:15:18<1:36:11,  5.49s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 37%|███▋      | 624/1674 [1:15:22<1:29:38,  5.12s/it]
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Source REF.32
IGNORED:  Samples_Pancreatitis
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Samples_Term Source REF.25
IGNORED:  Samples_Jaundice at admission
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.31
IGNORED:  Assay_Normalization Name
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.23
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IGNORED:  Samples_Term Source REF.29
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IGNORED:  Samples_Term Source REF.13
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IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.27
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IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Samples_Term Source REF.30
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IGNORED:  Samples_Term Source REF.21
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IGNORED:  Samples_Term Source REF.15
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Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS583
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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FILES
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS203
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q II: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
102-4 Ms 25min _GE3_01_4168.cdf
FILES
102-4 MsMs 25min 20eV_GE3_01_4124.cdf
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102-4 MsMs 25min 30eV_GE3_01_4125.cdf
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102-4 MsMs 25min 40eV_GE3_01_4126.cdf
FILES
102-4 MsMs 25min 50eV_GE3_01_4127.cdf
FILES
111-4 Ms 25min _GE4_01_4254.cdf
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111-4 idMsMs 25min 20eV_GE4_01_4250.cdf
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111-4 idMsMs 25min 30eV_GE4_01_4251.cdf
FILES
111-4 idMsMs 25min 40eV_GE4_01_4252.cdf
FILES
111-4 idMsMs 25min 50eV_GE4_01_4253.cdf
FILES
124-4 Ms 25min _GE5_01_4170.cdf
FILES
124-4 MsMs 25min 20eV_GE5_01_4132.cdf
FILES
124-4 MsMs 25min 30eV_GE5_01_4133.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
124-4 MsMs 25min 40eV_GE5_01_4134.cdf
FILES
124-4 MsMs 25min 50eV_GE5_01_4135.cdf
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15-4 Ms 25min _GE3_01_4249.cdf
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158-4 MsMs 25min 30eV_GE6_01_4137.cdf
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158-4 MsMs 25min 40eV_GE6_01_4138.cdf
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158-4 MsMs 25min 50eV_GE6_01_4139.cdf
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175-4 idMsMs 25min 30eV_GE2_01_4243.cdf
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175-4 idMsMs 25min 40eV_GE2_01_4241.cdf
FILES
175-4 idMsMs 25min 50eV_GE2_01_4242.cdf
FILES
36-4 Ms 25min _GE4_01_4169.cdf
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36-4 MsMs 25min 20eV_GE4_01_4128.cdf
FILES
36-4 MsMs 25min 30eV_GE4_01_4129.cdf
FILES
36-4 MsMs 25min 40eV_GE4_01_4130.cdf
FILES
36-4 MsMs 25min 50eV_GE4_01_4131.cdf
FILES
37-4 Ms 25min _GE6_01_4264.cdf
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37-4 idMsMs 25min 50eV_GE6_01_4263.cdf
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60-4 idMsMs 25min 20eV_GE5_01_4255.cdf
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60-4 idMsMs 25min 30eV_GE5_01_4256.cdf
FILES
60-4 idMsMs 25min 40eV_GE5_01_4257.cdf
FILES
60-4 idMsMs 25min 50eV_GE5_01_4258.cdf
FILES
62-4 Ms 25min _GE2_01_4167.cdf
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62-4 MsMs 25min 20eV_GE2_01_4120.cdf
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS591
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS598
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap XL: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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QC293.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 37%|███▋      | 627/1674 [1:16:12<4:33:05, 15.65s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 38%|███▊      | 628/1674 [1:16:18<3:42:52, 12.78s/it]
FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 1551 rows!
Added 1551 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS601
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QC01.mzXML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.2
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS606
Request successful!
SampleCollectionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 38%|███▊      | 629/1674 [1:16:27<3:19:52, 11.48s/it]
 38%|███▊      | 630/1674 [1:16:28<2:27:03,  8.45s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 38%|███▊      | 631/1674 [1:16:33<2:09:12,  7.43s/it]
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 38%|███▊      | 637/1674 [1:16:41<34:19,  1.99s/it]
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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FILES
liver78_9.mzXML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Samples_Sample type_1
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS613
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS615
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
W03.01.mzXML
FILES
W03.02.mzXML
FILES
W03.03.mzXML
FILES
W03.04.mzXML
FILES
W03.05.mzXML
FILES
W03.06.mzXML
FILES
W03.07.mzXML
FILES
W03.08.mzXML
FILES
W03.09.mzXML
FILES
W03.10.mzXML
FILES
W30.01.mzXML
FILES
W30.02.mzXML
FILES
W30.03.mzXML
FILES
W30.04.mzXML
FILES
W30.05.mzXML
FILES
W30.06.mzXML
FILES
W30.07.mzXML
FILES
W30.08.mzXML
FILES
W30.09.mzXML
FILES
W30.10.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 20 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS628
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS629
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS387
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS631
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS634
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS639
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS21
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Electron PolarisQ: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
080314_05_1.cdf
FILES
080314_05_10.cdf
FILES
080314_05_10_run02.cdf
FILES
080314_05_11.cdf
FILES
080314_05_11_run02.cdf
FILES
080314_05_13.cdf
FILES
080314_05_13_run02.cdf
FILES
080314_05_14.cdf
FILES
080314_05_14_run02.cdf
FILES
080314_05_1_run02.cdf
FILES
080314_05_2.cdf
FILES
080314_05_2_run02.cdf
FILES
080314_05_4.cdf
FILES
080314_05_4_run02.cdf
FILES
080314_05_5.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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080314_05_8.cdf
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080314_05_8_run02.cdf
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080314_06_1.cdf
FILES
080314_06_10.cdf
FILES
080314_06_10_run02.cdf
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080314_06_11_run02.cdf
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080314_06_13_run02.cdf
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080314_06_14_run02.cdf
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080314_06_2_run02.cdf
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080314_06_4.cdf
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080314_06_4_run02.cdf
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080314_06_5_run02.cdf
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080314_06_7.cdf
FILES
080314_06_7_run02.cdf
FILES
080314_06_8.cdf
FILES
080314_06_8_run02.cdf
IGNORED:  Samples_CO2 Concentration
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Cultivation Year
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 40 rows!
Added 40 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS644
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS648
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS654
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS159
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_03.mzML
FILES
QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_05.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_06.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_07.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_09.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_10.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_12.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_13.mzML
FILES
QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_14.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_15.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_16.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_18.mzML
FILES
QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_19.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_21.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_22.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_24.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_25.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_26.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_32.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_33.mzML
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QXA06POL20160108_USCA010413VWBL_MOUSE_PLASMA_34.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_06.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_07.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_08.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_12.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_13.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_14.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_15.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_16.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_18.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_19.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_22.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_24.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_25.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_26.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_27.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_31.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_32.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_33.mzML
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QXA07POSEAR20160106_USCA010413VWBL_MOUSE_PLASMA_34.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_03.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_05.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_06.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_07.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_10.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_12.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_13.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_14.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_15.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_16.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_18.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_19.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_21.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_22.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_24.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_25.mzML
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QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_26.mzML
FILES
QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_27.mzML
FILES
QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_31.mzML
FILES
QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_32.mzML
FILES
QXA07POSLAT20160106_USCA010413VWBL_MOUSE_PLASMA_33.mzML
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_05.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_06.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_07.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_08.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_09.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_10.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_12.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_13.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_14.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_15.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_16.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_18.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_19.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_21.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_22.mzML
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QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_24.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_25.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_26.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_27.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_31.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_32.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_33.mzML
FILES
QXA09NEG20160113_USCA010413VWBL_MOUSE_PLASMA_34.mzML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.11
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IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Source REF.21
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
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IGNORED:  Assay_Detector mode
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IGNORED:  Samples_Time point
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IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  Samples_age
IGNORED:  extension
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IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.16
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Term Accession Number.17
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IGNORED:  Assay_Term Source REF.5
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IGNORED:  Assay_Raw data file format
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
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Number of rows removed due to not enough metadata: 0
Returning 95 rows!
Added 95 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2878
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Focus: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
DERIVED_FILES
NEG
Cd-1.NEG.mzXML
FILES
DERIVED_FILES
NEG
Cd-2.NEG.mzXML
FILES
DERIVED_FILES
NEG
Cd-3.NEG.mzXML
FILES
DERIVED_FILES
NEG
EM-1.NEG.mzXML
FILES
DERIVED_FILES
NEG
EM-2.NEG.mzXML
FILES
DERIVED_FILES
NEG
EM-3.NEG.mzXML
FILES
DERIVED_FILES
NEG
Prm-1.NEG.mzXML
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NEG
Prm-2.NEG.mzXML
FILES
DERIVED_FILES
NEG
Prm-3.NEG.mzXML
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NEG
free-N-1.NEG.mzXML
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DERIVED_FILES
NEG
free-N-2.NEG.mzXML
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DERIVED_FILES
NEG
free-N-3.NEG.mzXML
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DERIVED_FILES
POS
Cd-1.POS.mzXML
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POS
Cd-2.POS.mzXML
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DERIVED_FILES
POS
Cd-3.POS.mzXML
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DERIVED_FILES
POS
EM-1.POS.mzXML
FILES
DERIVED_FILES
POS
EM-2.POS.mzXML
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DERIVED_FILES
POS
EM-3.POS.mzXML
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DERIVED_FILES
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Prm-1.POS.mzXML
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POS
Prm-2.POS.mzXML
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POS
Prm-3.POS.mzXML
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DERIVED_FILES
POS
free-N-1.POS.mzXML
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DERIVED_FILES
POS
free-N-2.POS.mzXML
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DERIVED_FILES
POS
free-N-3.POS.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 38%|███▊      | 643/1674 [1:17:14<1:36:33,  5.62s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 38%|███▊      | 644/1674 [1:17:21<1:43:03,  6.00s/it]
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2108
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20170823_SAM3390_saliva_neg.mzML
FILES
20170823_SAM3394_saliva_neg.mzML
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20170823_SAM3576_saliva_neg.mzML
FILES
20170823_SAM3678_saliva_neg.mzML
FILES
20170823_SAM3720_saliva_neg.mzML
FILES
20170823_SAM3726_saliva_neg.mzML
FILES
20170823_SAM3786_saliva_neg.mzML
FILES
20170823_SAM3798_saliva_neg.mzML
FILES
20170823_SAM3806_saliva_neg.mzML
FILES
20170823_SAM3812_saliva_neg.mzML
FILES
20170823_SAM3818_saliva_neg.mzML
FILES
20170823_SAM3824_saliva_neg.mzML
FILES
20170823_SAM3858_saliva_neg.mzML
FILES
20170823_SAM3864_saliva_neg.mzML
FILES
20170823_SAM3870_saliva_neg.mzML
FILES
20170823_SAM3928_saliva_neg.mzML
FILES
20170823_SAM3934_saliva_neg.mzML
FILES
20170823_SAM3940_saliva_neg.mzML
FILES
20170823_SAM3946_saliva_neg.mzML
FILES
20170823_SAM3954_saliva_neg.mzML
FILES
20170823_SAM3960_saliva_neg.mzML
FILES
20170823_SAM4002_saliva_neg.mzML
FILES
20170823_SAM4008_saliva_neg.mzML
FILES
20170823_SAM4016_saliva_neg.mzML
FILES
20170823_SAM4022_saliva_neg.mzML
FILES
20170823_SAM4028_saliva_neg.mzML
FILES
20170823_SAM4035_saliva_neg.mzML
FILES
20170825_SAM3390_saliva_pos.mzML
FILES
20170825_SAM3394_saliva_pos.mzML
FILES
20170825_SAM3576_saliva_pos.mzML
FILES
20170825_SAM3678_saliva_pos.mzML
FILES
20170825_SAM3720_saliva_pos.mzML
FILES
20170825_SAM3726_saliva_pos.mzML
FILES
20170825_SAM3786_saliva_pos.mzML
FILES
20170825_SAM3798_saliva_pos.mzML
FILES
20170825_SAM3806_saliva_pos.mzML
FILES
20170825_SAM3812_saliva_pos.mzML
FILES
20170825_SAM3818_saliva_pos.mzML
FILES
20170825_SAM3824_saliva_pos.mzML
FILES
20170825_SAM3858_saliva_pos.mzML
FILES
20170825_SAM3864_saliva_pos.mzML
FILES
20170825_SAM3870_saliva_pos.mzML
FILES
20170825_SAM3928_saliva_pos.mzML
FILES
20170825_SAM3934_saliva_pos.mzML
FILES
20170825_SAM3940_saliva_pos.mzML
FILES
20170825_SAM3946_saliva_pos.mzML
FILES
20170825_SAM3954_saliva_pos.mzML
FILES
20170825_SAM3960_saliva_pos.mzML
FILES
20170825_SAM4002_saliva_pos.mzML
FILES
20170825_SAM4008_saliva_pos.mzML
FILES
20170825_SAM4016_saliva_pos.mzML
FILES
20170825_SAM4022_saliva_pos.mzML
FILES
20170825_SAM4028_saliva_pos.mzML
FILES
20170825_SAM4035_saliva_pos.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  extension
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IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
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IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2109
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
01_4396_neg.mzML
FILES
01_4396_pos.mzML
FILES
02_4400_neg.mzML
FILES
02_4400_pos.mzML
FILES
03_4404_neg.mzML
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04_4408_neg.mzML
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04_4408_pos.mzML
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05_4636_neg.mzML
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09_3319_pos.mzML
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20_3183_pos.mzML
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21_3187_neg.mzML
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21_3187_pos.mzML
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22_3267_neg.mzML
FILES
22_3267_pos.mzML
FILES
23_3540_neg.mzML
FILES
23_3540_pos.mzML
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24_3966_neg.mzML
FILES
24_3966_pos.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 39%|███▊      | 645/1674 [1:17:27<1:44:01,  6.07s/it]
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS664
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
  Thermo Scientific Q Exactive HF: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Hilic_pos/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Batch run order
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
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IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Diagnosis
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Anticoagulant
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Run order
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Freeze-Thaw
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Well Position
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 16
Returning 1005 rows!
Added 1005 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10400
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF X500R: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
M1 MS1 SWATH-MS2 chain composition level.mzML
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DERIVED_FILES
M1 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
M4 MS1 SWATH-MS2 chain composition level.mzML
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DERIVED_FILES
M4 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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DERIVED_FILES
M5 MS1 SWATH-MS2 chain composition level.mzML
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DERIVED_FILES
M6 MS1 SWATH-MS2 chain composition level.mzML
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DERIVED_FILES
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DERIVED_FILES
M7 MS1 SWATH-MS2 chain composition level.mzML
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M7 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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DERIVED_FILES
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DERIVED_FILES
M8 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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DERIVED_FILES
N1 MS1 SWATH-MS2 chain composition level.mzML
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DERIVED_FILES
N1 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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DERIVED_FILES
N2 MS1 SWATH-MS2 chain composition level.mzML
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DERIVED_FILES
N2 PB-MS1 SWATH-MS2 CdblC location level_2.mzML
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DERIVED_FILES
N3 MS1 SWATH-MS2 chain composition level.mzML
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DERIVED_FILES
N3 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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DERIVED_FILES
N4 MS1 SWATH-MS2 chain composition level.mzML
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N4 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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DERIVED_FILES
N5 MS1 SWATH-MS2 chain composition level.mzML
FILES
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N5 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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DERIVED_FILES
N6 MS1 SWATH-MS2 chain composition level.mzML
FILES
DERIVED_FILES
N6 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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DERIVED_FILES
W1 MS1 SWATH-MS2 chain composition level.mzML
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DERIVED_FILES
W1 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
FILES
DERIVED_FILES
W2 MS1 SWATH-MS2 chain composition level.mzML
FILES
DERIVED_FILES
W2 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
FILES
DERIVED_FILES
W3 MS1 SWATH-MS2 chain composition level.mzML
FILES
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W3 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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W4 MS1 SWATH-MS2 chain composition level.mzML
FILES
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W4 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
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W5 MS1 SWATH-MS2 chain composition level.mzML
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W5 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
FILES
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W6 MS1 SWATH-MS2 chain composition level.mzML
FILES
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W6 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
FILES
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W7 MS1 SWATH-MS2 chain composition level.mzML
FILES
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FILES
DERIVED_FILES
W8 MS1 SWATH-MS2 chain composition level.mzML
FILES
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W8 PB-MS1 SWATH-MS2 CdblC location level_1.mzML
FILES
DERIVED_FILES
pooled human brain- targeted MS2-injection_7.mzML
FILES
DERIVED_FILES
pooled human brain-SWATH CdblC location profiling -25 experiments-injection 1_2.mzML
FILES
DERIVED_FILES
pooled human brain-SWATH CdblC location profiling-25 experiments-injection 1_1.mzML
FILES
DERIVED_FILES
pooled human brain-SWATH CdblC location profiling-25 experiments-injection 1_3.mzML
FILES
DERIVED_FILES
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pooled human brain-SWATH CdblC location profiling-25 experiments-injection 2_2.mzML
FILES
DERIVED_FILES
pooled human brain-SWATH CdblC location profiling-25 experiments-injection 2_3.mzML
FILES
DERIVED_FILES
porcine brain -MS1 SWATH MS2-CdblC location level 1_1.mzML
FILES
DERIVED_FILES
porcine brain -MS1 SWATH MS2-CdblC location level 2_1.mzML
FILES
DERIVED_FILES
porcine brain -MS1 SWATH MS2-CdblC location level 3_1.mzML
FILES
DERIVED_FILES
porcine brain -MS1 SWATH MS2_4.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 55 rows!
Added 55 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10401
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker impact II UHR-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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wz-17-24_15033.d/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 39%|███▊      | 648/1674 [1:18:19<3:33:46, 12.50s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 39%|███▉      | 649/1674 [1:18:27<3:05:38, 10.87s/it]
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Number of rows removed due to not enough metadata: 0
Returning 336 rows!
Added 336 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2887
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive HF-X: missing value
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 20 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1622
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10450
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS164
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS212
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus 4D: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CZ1_10s.cdf
FILES
CZ1_30m.cdf
FILES
CZ1_5m.cdf
FILES
CZ2_10s.cdf
FILES
CZ2_30m.cdf
FILES
CZ2_5m.cdf
FILES
CZ3_10s.cdf
FILES
CZ3_30m.cdf
FILES
CZ3_5m.cdf
FILES
KA1_10s.cdf
FILES
KA1_30m.cdf
FILES
KA1_5m.cdf
FILES
KA2_10s.cdf
FILES
KA2_30m.cdf
FILES
KA2_5m.cdf
FILES
KA3_10s.cdf
FILES
KA3_30m.cdf
FILES
KA3_5m.cdf
FILES
LT1_10s.cdf
FILES
LT1_30m.cdf
FILES
LT1_5m.cdf
FILES
LT2_10s.cdf
FILES
LT2_30m.cdf
FILES
LT2_5m.cdf
FILES
LT3_10s.cdf
FILES
LT3_30m.cdf
FILES
LT3_5m.cdf
FILES
MP1_10s.cdf
FILES
MP1_30m.cdf
FILES
MP1_5m.cdf
FILES
MP2_10s.cdf
FILES
MP2_30m.cdf
FILES
MP2_5m.cdf
FILES
MP3_10s.cdf
FILES
MP3_30m.cdf
FILES
MP3_5m.cdf
FILES
PK1_10s.cdf
FILES
PK1_30m.cdf
FILES
PK1_5m.cdf
FILES
PK2_10s.cdf
FILES
PK2_30m.cdf
FILES
PK2_5m.cdf
FILES
PK3_10s.cdf
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 39%|███▉      | 653/1674 [1:18:40<1:41:36,  5.97s/it]
 39%|███▉      | 654/1674 [1:18:42<1:18:37,  4.62s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 39%|███▉      | 655/1674 [1:18:49<1:35:12,  5.61s/it]
PK3_30m.cdf
FILES
PK3_5m.cdf
FILES
QC1_10s.cdf
FILES
QC1_30m.cdf
FILES
QC1_5m.cdf
FILES
QC2_10s.cdf
FILES
QC2_30m.cdf
FILES
QC2_5m.cdf
FILES
QC3_10s.cdf
FILES
QC3_30m.cdf
FILES
QC3_5m.cdf
FILES
QC4_10s.cdf
FILES
QC4_30m.cdf
FILES
QC4_5m.cdf
FILES
QC5_10s.cdf
FILES
QC5_30m.cdf
FILES
QC5_5m.cdf
FILES
QC6_10s.cdf
FILES
QC6_30m.cdf
FILES
QC6_5m.cdf
FILES
QC7_10s.cdf
FILES
QC7_30m.cdf
FILES
QC7_5m.cdf
FILES
QC8_30m.cdf
FILES
QC8_5m.cdf
FILES
SC1_10s.cdf
FILES
SC1_30m.cdf
FILES
SC1_5m.cdf
FILES
SC2_10s.cdf
FILES
SC2_30m.cdf
FILES
SC2_5m.cdf
FILES
SC3_10s.cdf
FILES
SC3_30m.cdf
FILES
SC3_5m.cdf
FILES
TD1_10s.cdf
FILES
TD1_30m.cdf
FILES
TD1_5m.cdf
FILES
TD2_10s.cdf
FILES
TD2_30m.cdf
FILES
TD2_5m.cdf
FILES
TD3_10s.cdf
FILES
TD3_30m.cdf
FILES
TD3_5m.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Column type 1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Column model 2
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Column model 1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Samples_Treatment
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type 2
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 86 rows!
Added 86 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS667
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10516
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG_Fk02FJ2_F8_1.raw
FILES
RAW_FILES
NEG_Fk02FJ2_F8_2.raw
FILES
RAW_FILES
NEG_Fk02FJ2_F8_3.raw
FILES
RAW_FILES
NEG_Fk02FJ2_FBNC1.raw
FILES
RAW_FILES
NEG_Fk02FJ2_FBNC2.raw
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RAW_FILES
NEG_Fk02FJ2_FBNC3.raw
FILES
RAW_FILES
NEG_Fk02FJ2_NC1.raw
FILES
RAW_FILES
NEG_Fk02FJ2_NC2.raw
FILES
RAW_FILES
NEG_Fk02FJ2_NC3.raw
FILES
RAW_FILES
NEG_Fk02FJ_F8_4.raw
FILES
RAW_FILES
NEG_Fk02FJ_F8_5.raw
FILES
RAW_FILES
NEG_Fk02FJ_F8_6.raw
FILES
RAW_FILES
NEG_Fk02FJ_FBNC4.raw
FILES
RAW_FILES
NEG_Fk02FJ_FBNC5.raw
FILES
RAW_FILES
NEG_Fk02FJ_FBNC6.raw
FILES
RAW_FILES
NEG_Fk02FJ_NC4.raw
FILES
RAW_FILES
NEG_Fk02FJ_NC5.raw
FILES
RAW_FILES
NEG_Fk02FJ_NC6.raw
FILES
RAW_FILES
POS_Fk02FJ2_F8_1.raw
FILES
RAW_FILES
POS_Fk02FJ2_F8_2.raw
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RAW_FILES
POS_Fk02FJ2_F8_3.raw
FILES
RAW_FILES
POS_Fk02FJ2_FBNC1.raw
FILES
RAW_FILES
POS_Fk02FJ2_FBNC2.raw
FILES
RAW_FILES
POS_Fk02FJ2_FBNC3.raw
FILES
RAW_FILES
POS_Fk02FJ2_NC1.raw
FILES
RAW_FILES
POS_Fk02FJ2_NC2.raw
FILES
RAW_FILES
POS_Fk02FJ2_NC3.raw
FILES
RAW_FILES
POS_Fk02FJ_F8_4.raw
FILES
RAW_FILES
POS_Fk02FJ_F8_5.raw
FILES
RAW_FILES
POS_Fk02FJ_F8_6.raw
FILES
RAW_FILES
POS_Fk02FJ_FBNC4.raw
FILES
RAW_FILES
POS_Fk02FJ_FBNC5.raw
FILES
RAW_FILES
POS_Fk02FJ_FBNC6.raw
FILES
RAW_FILES
POS_Fk02FJ_NC4.raw
FILES
RAW_FILES
POS_Fk02FJ_NC5.raw
FILES
RAW_FILES
POS_Fk02FJ_NC6.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10555
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
ChromatographyAndPhase:/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 39%|███▉      | 656/1674 [1:18:55<1:33:33,  5.51s/it]
 39%|███▉      | 657/1674 [1:18:57<1:18:56,  4.66s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 39%|███▉      | 658/1674 [1:19:07<1:43:26,  6.11s/it]
 39%|███▉      | 659/1674 [1:19:11<1:34:48,  5.60s/it]
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
TAC-10d-1.mzML
FILES
TAC-10d-2.mzML
FILES
TAC-10d-3.mzML
FILES
TAC-10d-4.mzML
FILES
TAC-10d-5.mzML
FILES
TAC-10d-6.mzML
FILES
TAC-10d-7.mzML
FILES
TAC-10d-8.mzML
FILES
TAC-14d-1.mzML
FILES
TAC-14d-2.mzML
FILES
TAC-14d-3.mzML
FILES
TAC-14d-4.mzML
FILES
TAC-14d-5.mzML
FILES
TAC-14d-6.mzML
FILES
TAC-14d-7.mzML
FILES
TAC-14d-8.mzML
FILES
TAC-1d-1.mzML
FILES
TAC-1d-2.mzML
FILES
TAC-1d-3.mzML
FILES
TAC-1d-4.mzML
FILES
TAC-1d-5.mzML
FILES
TAC-1d-6.mzML
FILES
TAC-1d-7.mzML
FILES
TAC-1d-8.mzML
FILES
TAC-3d-1.mzML
FILES
TAC-3d-2.mzML
FILES
TAC-3d-3.mzML
FILES
TAC-3d-4.mzML
FILES
TAC-3d-5.mzML
FILES
TAC-3d-6.mzML
FILES
TAC-3d-7.mzML
FILES
TAC-3d-8.mzML
FILES
TAC-7d-1.mzML
FILES
TAC-7d-2.mzML
FILES
TAC-7d-3.mzML
FILES
TAC-7d-4.mzML
FILES
TAC-7d-5.mzML
FILES
TAC-7d-6.mzML
FILES
TAC-7d-7.mzML
FILES
TAC-7d-8.mzML
FILES
sham-1.mzML
FILES
sham-2.mzML
FILES
sham-3.mzML
FILES
sham-4.mzML
FILES
sham-5.mzML
FILES
sham-6.mzML
FILES
sham-7.mzML
FILES
sham-8.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS215
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2154
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX TripleTOF 5600: missing value
UBERONBodyPartName:
  : missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Infected P_palmivora
IGNORED:  Samples_Term Accession Number
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 20 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS398
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS671
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q II: missing value
  micrOTOF-Q: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Fresh weight
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Term Accession Number.21
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
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IGNORED:  Assay_Protocol REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 164
Returning 466 rows!
Added 466 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS216
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS218
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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202_M1_pE_329_V2_6491_V2.mzXML
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203_M1_pE_Bl.mzXML
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204_M1_pE_pool_QC.mzXML
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208_M1_pE_Bl.mzXML
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218_M1_pE_Bl.mzXML
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219_M1_pE_pool_QC.mzXML
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221_M1_pE_336_V2_14339_V2.mzXML
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223_M1_pE_Bl.mzXML
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224_M1_pE_pool_QC.mzXML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Assay_Term Source REF
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 224 rows!
Added 224 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS290
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
FILES
2014-02-13 LUNA 100x2mm ASFIXIE.wiff
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 1
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS673
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-XS QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
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FILES
20170223_QC_06_POS.raw
FILES
20170223_QC_07_POS.raw
FILES
20170223_QC_08_POS.raw
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20170223_QC_09_POS.raw
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20170223_QC_10_POS.raw
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20170223_QC_11_POS.raw
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P16074100016-20_POS.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 40%|███▉      | 664/1674 [1:20:14<2:28:48,  8.84s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 40%|███▉      | 665/1674 [1:20:19<2:12:02,  7.85s/it]
FILES
P16074100021-25_POS.raw
FILES
P16074100026-30_POS.raw
FILES
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P16074100036-40_POS.raw
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 58 rows!
Added 58 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10715
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LTQ Orbitrap Elite: missing value
ENVOEnvironmentBiome:
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FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Sample type
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IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 34 rows!
Added 34 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10720
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Orbitrap ID-X: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
SUB12904p4_KO_T_1.raw
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SUB12904p4_KO_T_2.raw
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SUB12904p4_KO_T_3.raw
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SUB12904p4_KO_UT_1.raw
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SUB12904p4_KO_UT_2.raw
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SUB13761_cell15N.raw
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SUB13761_cell1_1.raw
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SUB13761_cellAD.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 40%|███▉      | 666/1674 [1:20:24<1:59:00,  7.08s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 40%|███▉      | 667/1674 [1:20:32<2:02:06,  7.28s/it]
FILES
SUB13761_cellU.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 22 rows!
Added 22 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS219
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  LECO Pegasus III: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
10FKO.cdf
FILES
11MHET.cdf
FILES
12FKO.cdf
FILES
13MHET.cdf
FILES
14MHET.cdf
FILES
15MHET.cdf
FILES
16MKO.cdf
FILES
17FHET.cdf
FILES
18FKO.cdf
FILES
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FILES
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FILES
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FILES
21FHET.cdf
FILES
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FILES
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FILES
24FKO.cdf
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FILES
26FHET.cdf
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27FHET.cdf
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28FHET.cdf
FILES
29FHET.cdf
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C54.cdf
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C57.cdf
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C6.cdf
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS677
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CCM_1.raw
FILES
CCM_2.raw
FILES
CCM_3.raw
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GLC11_1.raw
FILES
GLC11_2.raw
FILES
GLC11_3.raw
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GLC14_1.raw
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GLC_14_1.raw
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KO_1.raw
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WT_5.raw
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WT_6.raw
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_I_KO2.raw
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_I_KO3.raw
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_I_KO4.raw
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_I_KO5.raw
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_I_KO6.raw
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_I_SiASNS1.raw
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_I_SiASNS2.raw
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_I_SiASNS3.raw
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_I_SiASNS4.raw
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_I_SiASNS5.raw
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_I_SiASNS6.raw
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_I_WT1.raw
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_I_WT2.raw
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_I_WT3.raw
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_I_WT4.raw
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siASNS_1.raw
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siASNS_2.raw
FILES
siASNS_3.raw
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siASNS_4.raw
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siASNS_5.raw
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IGNORED:  Samples_Tracer
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 40%|███▉      | 668/1674 [1:20:43<2:17:35,  8.21s/it]
 40%|███▉      | 669/1674 [1:20:44<1:43:02,  6.15s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 40%|████      | 670/1674 [1:20:51<1:49:49,  6.56s/it]
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Protocol REF.5
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 15
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS22
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2200
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Waters Xevo G2-XS QTof: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
AT_Ex_10_A.mzML
FILES
DERIVED_FILES
AT_Ex_11_A.mzML
FILES
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AT_Ex_12_A.mzML
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AT_Ex_13_A.mzML
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AT_Ex_14_A.mzML
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AT_Ex_8_A.mzML
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AT_In_10_A.mzML
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AT_In_12_A.mzML
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AT_In_13_A.mzML
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AT_In_14_A.mzML
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XM_In_5_A.mzML
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XM_In_6_A.mzML
FILES
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XM_In_7_A.mzML
FILES
DERIVED_FILES
expt_ctrl_01_A.mzML
FILES
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expt_ctrl_02_A.mzML
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DERIVED_FILES
solventblank_01_A.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Cohort
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Collection date
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 31 rows!
Added 31 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2215
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_03.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_04.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_05.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_06.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_08.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_09.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_10.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_12.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_13.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_14.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_15.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_16.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_17.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_18.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_19.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_20.mzML
FILES
DERIVED_FILES
Method 1
QXA15POSEAR20180823_UNCH0317VW_HUMAN_MIXED1_21.mzML
FILES
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 1156 rows!
Added 1156 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2217
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500+: missing value
  Shimadzu GCMS-TQ8040: missing value
IonizationSourceAndPolarity:
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ChromatographyAndPhase:
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2239
Request successful!
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8c-1-autoMSMS-neg_P1-A-4_1_7162.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS68
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 3936 rows!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 40%|████      | 674/1674 [1:25:25<19:50:03, 71.40s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 40%|████      | 675/1674 [1:25:32<14:24:32, 51.92s/it]
 40%|████      | 676/1674 [1:25:34<10:15:43, 37.02s/it]
 40%|████      | 677/1674 [1:25:35<7:17:52, 26.35s/it] 
Added 3936 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS680
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientic TSQ Quantiva: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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CCWB_oxidativestress_180315_63.raw
FILES
CCWB_oxidativestress_180315_64.raw
FILES
CCWB_oxidativestress_180315_65.raw
FILES
CCWB_oxidativestress_180315_66.raw
FILES
CCWB_oxidativestress_180315_67.raw
FILES
CCWB_oxidativestress_180315_68.raw
FILES
CCWB_oxidativestress_180315_69.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Drug Treatment
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Post-Extraction
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 77 rows!
Added 77 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS292
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS226
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS227
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker CaptiveSpray nanoBooster and amaZon speed: missing value
  Bruker ultrafleXtreme: missing value
IonizationSourceAndPolarity:
   (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
37382-A03-1 SW620_01.mzML
FILES
37382-A04-2 CaCo2_01.mzML
FILES
37382-A04-2 CaCo2_02 MS2.mzML
FILES
37382-A04-2 CaCo2_03 MS2.mzML
FILES
37382-A04-2 CaCo2_04 MS2.mzML
FILES
37382-A04-2 CaCo2_05 MS3 interrupted after 20min.mzML
FILES
37382-A06-1 SW1116_01.mzML
FILES
37382-A06-1 SW1116_02 MS2.mzML
FILES
37382-A06-1 SW1116_04 MS2.mzML
FILES
37382-A06-2 Colo205_VUmc_01.mzML
FILES
37382-A08-2 RKO_VUmc_01.mzML
FILES
37382-A08-2 RKO_VUmc_02 MS2.mzML
FILES
37382-A09-1 SW480_01.mzML
FILES
37382-A09-1 SW480_02 MS2.mzML
FILES
37382-A10-1 HCT8_01.mzML
FILES
37382-A10-1 HCT8_02 MS2.mzML
FILES
37382-A12-1 WiDr_01.mzML
FILES
37382-A12-1 WiDr_02 MS2.mzML
FILES
37382-B04-1 HT29_01.mzML
FILES
37382-B04-1 HT29_02 MS2.mzML
FILES
37382-B08-1 LOVO_01.mzML
FILES
37382-B08-1 LOVO_02 MS2.mzML
FILES
37382-B12-1 SW48_01.mzML
FILES
37382-B12-1 SW48_02 MS2.mzML
FILES
LIFT_1444_D5.raw
FILES
LIFT_1617_D6.raw
FILES
LIFT_1622_E6.raw
FILES
LIFT_1663_C17.raw
FILES
LIFT_1752_B14.raw
FILES
LIFT_1825_G3.raw
FILES
LIFT_1850_C12.raw
FILES
LIFT_1866_B1.raw
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 41%|████      | 678/1674 [1:25:42<5:38:40, 20.40s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 41%|████      | 679/1674 [1:25:47<4:25:04, 15.98s/it]FILES
LIFT_1982J1.raw
FILES
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FILES
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FILES
LIFT_2331_C5.raw
FILES
LIFT_2393_C19.raw
FILES
LIFT_2639_E19.raw
FILES
LIFT_2639_E20.raw
FILES
LIFT_2712_L3.raw
FILES
LIFT_A13_2494.raw
FILES
LIFT_A16_2540.raw
FILES
LIFT_A17_2889.raw
FILES
LIFT_A17_3036.raw
FILES
LIFT_A18_2494.raw
FILES
LIFT_A18_2860.raw
FILES
LIFT_A19_2304.raw
FILES
LIFT_A19_2670.raw
FILES
LIFT_A20_1257.raw
FILES
LIFT_A2_1419.raw
FILES
LIFT_A2_1581.raw
FILES
LIFT_B11_1688.raw
FILES
LIFT_C11_1743.raw
FILES
LIFT_C11_1905.raw
FILES
LIFT_C13_1996.raw
FILES
LIFT_C24_2158.raw
FILES
LIFT_C2_1955.raw
FILES
LIFT_C3_2067.raw
FILES
LIFT_C4_2685.raw
FILES
LIFT_C7_2523.raw
FILES
LIFT_C8_2215.raw
FILES
LIFT_C9_2685.raw
FILES
LIFT_D12_1809.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Column type 1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Column model 2
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Biol. Replicate
IGNORED:  Samples_Sample group
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Column model 1
IGNORED:  Samples_CDX1/Villin
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Tumour site
IGNORED:  keep
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IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Stage
IGNORED:  Assay_Column type 2
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Assay_Tech. replicate
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 63 rows!
Added 63 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11115
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
neg_A1.raw
FILES
RAW_FILES
neg_A2.raw
FILES
RAW_FILES
neg_A3.raw
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RAW_FILES
neg_A4.raw
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RAW_FILES
neg_A5.raw
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RAW_FILES
neg_A6.raw
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RAW_FILES
neg_A7.raw
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RAW_FILES
neg_A8.raw
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RAW_FILES
neg_B1.raw
FILES
RAW_FILES
neg_B2.raw
FILES
RAW_FILES
neg_B3.raw
FILES
RAW_FILES
neg_B4.raw
FILES
RAW_FILES
neg_B5.raw
FILES
RAW_FILES
neg_B6.raw
FILES
RAW_FILES
neg_B7.raw
FILES
RAW_FILES
neg_B8.raw
FILES
RAW_FILES
neg_C1.raw
FILES
RAW_FILES
neg_C2.raw
FILES
RAW_FILES
neg_C3.raw
FILES
RAW_FILES
neg_C4.raw
FILES
RAW_FILES
neg_C5.raw
FILES
RAW_FILES
neg_C6.raw
FILES
RAW_FILES
neg_C7.raw
FILES
RAW_FILES
neg_C8.raw
FILES
RAW_FILES
neg_D1.raw
FILES
RAW_FILES
neg_D2.raw
FILES
RAW_FILES
neg_D3.raw
FILES
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neg_D4.raw
FILES
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neg_D5.raw
FILES
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neg_D6.raw
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RAW_FILES
neg_D7.raw
FILES
RAW_FILES
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FILES
RAW_FILES
neg_QC01.raw
FILES
RAW_FILES
neg_QC02.raw
FILES
RAW_FILES
neg_QC03.raw
FILES
RAW_FILES
pos_A1.raw
FILES
RAW_FILES
pos_A2.raw
FILES
RAW_FILES
pos_A3.raw
FILES
RAW_FILES
pos_A4.raw
FILES
RAW_FILES
pos_A5.raw
FILES
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pos_A6.raw
FILES
RAW_FILES
pos_A7.raw
FILES
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RAW_FILES
pos_B1.raw
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pos_B2.raw
FILES
RAW_FILES
pos_B3.raw
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RAW_FILES
pos_B4.raw
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pos_B5.raw
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RAW_FILES
pos_B6.raw
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pos_B7.raw
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RAW_FILES
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RAW_FILES
pos_C1.raw
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RAW_FILES
pos_C2.raw
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pos_C3.raw
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RAW_FILES
pos_C4.raw
FILES
RAW_FILES
pos_C5.raw
FILES
RAW_FILES
pos_C6.raw
FILES
RAW_FILES
pos_C7.raw
FILES
RAW_FILES
pos_C8.raw
FILES
RAW_FILES
pos_D1.raw
FILES
RAW_FILES
pos_D2.raw
FILES
RAW_FILES
pos_D3.raw
FILES
RAW_FILES
pos_D4.raw
FILES
RAW_FILES
pos_D5.raw
FILES
RAW_FILES
pos_D6.raw
FILES
RAW_FILES
pos_D7.raw
FILES
RAW_FILES
pos_D8.raw
FILES
RAW_FILES
pos_QC01.raw
FILES
RAW_FILES
pos_QC02.raw
FILES
RAW_FILES
pos_QC03.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_WGE dose
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 70 rows!
Added 70 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS295
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 41%|████      | 680/1674 [1:25:55<3:44:11, 13.53s/it]
 41%|████      | 681/1674 [1:25:56<2:41:41,  9.77s/it]SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
  Thermo Scientific TSQ Vantage: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
mtab_ft_micro_rerun_26.RAW
FILES
mtab_ft_micro_rerun_27.RAW
FILES
mtab_ft_micro_rerun_28.RAW
FILES
mtab_ft_micro_rerun_29.RAW
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mtab_ft_micro_rerun_30.RAW
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mtab_ft_micro_rerun_32.RAW
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mtab_ft_micro_rerun_33.RAW
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mtab_ft_micro_rerun_37.RAW
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mtab_ft_micro_rerun_38.RAW
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mtab_ft_micro_rerun_42.RAW
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mtab_ft_micro_rerun_46.RAW
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mtab_ft_micro_rerun_47.RAW
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mtab_ft_micro_rerun_48.RAW
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mtab_ft_micro_rerun_49.RAW
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mtab_micro_012315_10.RAW
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mtab_micro_012315_103.RAW
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mtab_micro_012315_106.RAW
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mtab_micro_012315_11.RAW
FILES
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FILES
mtab_micro_012315_31.RAW
FILES
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FILES
mtab_micro_012315_33.RAW
FILES
mtab_micro_012315_34.RAW
FILES
mtab_micro_012315_36.RAW
FILES
mtab_micro_012315_37.RAW
FILES
mtab_micro_012315_38.RAW
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FILES
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FILES
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mtab_micro_012315_49.RAW
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FILES
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mtab_micro_012315_55.RAW
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mtab_micro_012315_66.RAW
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mtab_micro_012315_68.RAW
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 147 rows!
Added 147 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11190
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2309
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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FILES
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 41%|████      | 682/1674 [1:26:03<2:25:27,  8.80s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 41%|████      | 683/1674 [1:26:10<2:17:02,  8.30s/it]
Standard_2A.raw
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Number of rows removed due to not enough metadata: 16
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2311
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 85 rows!
Added 85 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS405/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 41%|████      | 684/1674 [1:26:19<2:19:17,  8.44s/it]
 41%|████      | 685/1674 [1:26:20<1:45:24,  6.40s/it]
 41%|████      | 686/1674 [1:26:23<1:24:47,  5.15s/it]
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Vantage: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Samples_Term Source REF.2
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Number of rows removed due to not enough metadata: 0
Returning 197 rows!
Added 197 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2322
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS296
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2330
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Quantum: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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Number of rows removed due to not enough metadata: 0
Returning 56 rows!
Added 56 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2336
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS234
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1130
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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menRCCstage2_2683.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Disease staging
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 264 rows!
Added 264 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2343
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo TQ-S: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 1556 rows!
Added 1556 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11336
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SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 309 rows!
Added 309 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2401
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 99 rows!
Added 99 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS303
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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Country: ADDED!
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aqueous_metabolites/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 150 rows!
Added 150 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2418
Request successful!
SampleCollectionMethod: ADDED!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Labeled Extract Name
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2419
Request successful!
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IGNORED:  Assay_Number of scans
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IGNORED:  Samples_Vitamin Supplements
IGNORED:  Samples_Term Source REF.7
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  filename_lower/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 42%|████▏     | 702/1674 [1:28:21<2:11:08,  8.10s/it]
 42%|████▏     | 703/1674 [1:28:22<1:37:30,  6.02s/it]
 42%|████▏     | 704/1674 [1:28:30<1:44:59,  6.49s/it]
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Term Accession Number.15
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
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IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Source REF.16
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Samples_Supply Perception
IGNORED:  Samples_Antibacterial Use
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 140 rows!
Added 140 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS243
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS688
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS690
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus III: missing value
  Agilent 6550 iFunnel Q-TOF: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES
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FILES
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FILES
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FILES
gcms_none_liver_CW-l6_H1912.cdf
FILES
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FILES
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FILES
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FILES
gcms_none_muscle_CW-m17_H1939.cdf
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gcms_none_muscle_CW-m18_H1943.cdf
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gcms_none_muscle_CW-m19_H1948.cdf
FILES
gcms_none_muscle_CW-m1_H1717.cdf
FILES
gcms_none_muscle_CW-m20_H1950.cdf
FILES
gcms_none_muscle_CW-m21_H1955.cdf
FILES
gcms_none_muscle_CW-m22_H1956.cdf
FILES
gcms_none_muscle_CW-m23_H1957.cdf
FILES
gcms_none_muscle_CW-m24_H1961.cdf
FILES
gcms_none_muscle_CW-m25_H1962.cdf
FILES
gcms_none_muscle_CW-m26_H1980.cdf
FILES
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FILES
gcms_none_muscle_CW-m28_H2002.cdf
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FILES
gcms_none_muscle_CW-m2_H1784.cdf
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FILES
gcms_none_muscle_CW-m31_H2027.cdf
FILES
gcms_none_muscle_CW-m32_H2051.cdf
FILES
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FILES
gcms_none_muscle_CW-m34_H2056.cdf
FILES
gcms_none_muscle_CW-m35_H2060.cdf
FILES
gcms_none_muscle_CW-m36_H2061.cdf
FILES
gcms_none_muscle_CW-m37_H2063.cdf
FILES
gcms_none_muscle_CW-m38_H2070.cdf
FILES
gcms_none_muscle_CW-m39_H2077.cdf
FILES
gcms_none_muscle_CW-m40_H2088.cdf
FILES
gcms_none_muscle_CW-m41_H2107.cdf
FILES
gcms_none_muscle_CW-m42_H2108.cdf
FILES
gcms_none_muscle_CW-m43_H2117.cdf
FILES
gcms_none_muscle_CW-m44_H2132.cdf
FILES
gcms_none_muscle_CW-m45_H2133.cdf
FILES
gcms_none_muscle_CW-m46_H2134.cdf
FILES
gcms_none_muscle_CW-m4_H1857.cdf
FILES
gcms_none_muscle_CW-m50_H1848.cdf
FILES
gcms_none_muscle_CW-m5_H1863.cdf
FILES
gcms_none_muscle_CW-m6_H1912.cdf
FILES
gcms_none_muscle_CW-m7_H1913.cdf
FILES
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FILES
gcms_none_muscle_CW-m9_H1919.cdf
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gcms_none_serum_CW-s10_H1920.cdf
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gcms_none_serum_CW-s11_H1921.cdf
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gcms_none_serum_CW-s12_H1928.cdf
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gcms_none_serum_CW-s14_H1931.cdf
FILES
gcms_none_serum_CW-s15_H1933.cdf
FILES
gcms_none_serum_CW-s16_H1937.cdf
FILES
gcms_none_serum_CW-s17_H1939.cdf
FILES
gcms_none_serum_CW-s18_H1943.cdf
FILES
gcms_none_serum_CW-s19_H1948.cdf
FILES
gcms_none_serum_CW-s1_H1717.cdf
FILES
gcms_none_serum_CW-s20_H1950.cdf
FILES
gcms_none_serum_CW-s21_H1955.cdf
FILES
gcms_none_serum_CW-s23_H1957.cdf
FILES
gcms_none_serum_CW-s24_H1961.cdf
FILES
gcms_none_serum_CW-s25_H1962.cdf
FILES
gcms_none_serum_CW-s26_H1980.cdf
FILES
gcms_none_serum_CW-s27_H1981.cdf
FILES
gcms_none_serum_CW-s28_H2002.cdf
FILES
gcms_none_serum_CW-s29_H2016.cdf
FILES
gcms_none_serum_CW-s2_H1784.cdf
FILES
gcms_none_serum_CW-s30_H2017.cdf
FILES
gcms_none_serum_CW-s31_H2027.cdf
FILES
gcms_none_serum_CW-s32_H2051.cdf
FILES
gcms_none_serum_CW-s33_H2054.cdf
FILES
gcms_none_serum_CW-s34_H2056.cdf
FILES
gcms_none_serum_CW-s35_H2060.cdf
FILES
gcms_none_serum_CW-s36_H2061.cdf
FILES
gcms_none_serum_CW-s37_H2063.cdf
FILES
gcms_none_serum_CW-s38_H2070.cdf
FILES
gcms_none_serum_CW-s39_H2077.cdf
FILES
gcms_none_serum_CW-s40_H2088.cdf
FILES
gcms_none_serum_CW-s41_H2107.cdf
FILES
gcms_none_serum_CW-s42_H2108.cdf
FILES
gcms_none_serum_CW-s43_H2117.cdf
FILES
gcms_none_serum_CW-s44_H2132.cdf
FILES
gcms_none_serum_CW-s45_H2133.cdf
FILES
gcms_none_serum_CW-s46_H2134.cdf
FILES
gcms_none_serum_CW-s4_H1857.cdf
FILES
gcms_none_serum_CW-s50_H1848.cdf
FILES
gcms_none_serum_CW-s5_H1863.cdf
FILES
gcms_none_serum_CW-s6_H1912.cdf
FILES
gcms_none_serum_CW-s7_H1913.cdf
FILES
gcms_none_serum_CW-s8_H1918.cdf
FILES
gcms_none_serum_CW-s9_H1919.cdf
FILES
lcms_negative_fat_CW-f10_H1920.CDF
FILES
lcms_negative_fat_CW-f11_H1921.CDF
FILES
lcms_negative_fat_CW-f12_H1928.CDF
FILES
lcms_negative_fat_CW-f13_H1930.CDF
FILES
lcms_negative_fat_CW-f14_H1931.CDF
FILES
lcms_negative_fat_CW-f15_H1933.CDF
FILES
lcms_negative_fat_CW-f16_H1937.CDF
FILES
lcms_negative_fat_CW-f17_H1939.CDF
FILES
lcms_negative_fat_CW-f18_H1943.CDF
FILES
lcms_negative_fat_CW-f19_H1948.CDF
FILES
lcms_negative_fat_CW-f1_H1717.CDF
FILES
lcms_negative_fat_CW-f20_H1950.CDF
FILES
lcms_negative_fat_CW-f21_H1955.CDF
FILES
lcms_negative_fat_CW-f22_H1956.CDF
FILES
lcms_negative_fat_CW-f23_H1957.CDF
FILES
lcms_negative_fat_CW-f24_H1961.CDF
FILES
lcms_negative_fat_CW-f25_H1962.CDF
FILES
lcms_negative_fat_CW-f26_H1980.CDF
FILES
lcms_negative_fat_CW-f27_H1981.CDF
FILES
lcms_negative_fat_CW-f28_H2002.CDF
FILES
lcms_negative_fat_CW-f29_H2016.CDF
FILES
lcms_negative_fat_CW-f2_H1784.CDF
FILES
lcms_negative_fat_CW-f30_H2017.CDF
FILES
lcms_negative_fat_CW-f31_H2027.CDF
FILES
lcms_negative_fat_CW-f32_H2051.CDF
FILES
lcms_negative_fat_CW-f33_H2054.CDF
FILES
lcms_negative_fat_CW-f34_H2056.CDF
FILES
lcms_negative_fat_CW-f35_H2060.CDF
FILES
lcms_negative_fat_CW-f36_H2061.CDF
FILES
lcms_negative_fat_CW-f37_H2063.CDF
FILES
lcms_negative_fat_CW-f38_H2070.CDF
FILES
lcms_negative_fat_CW-f39_H2077.CDF
FILES
lcms_negative_fat_CW-f40_H2088.CDF
FILES
lcms_negative_fat_CW-f41_H2107.CDF
FILES
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FILES
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FILES
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FILES
lcms_negative_fat_CW-f45_H2133.CDF
FILES
lcms_negative_fat_CW-f46_H2134.CDF
FILES
lcms_negative_fat_CW-f4_H1857.CDF
FILES
lcms_negative_fat_CW-f50_H1848.CDF
FILES
lcms_negative_fat_CW-f5_H1863.CDF
FILES
lcms_negative_fat_CW-f6_H1912.CDF
FILES
lcms_negative_fat_CW-f7_H1913.CDF
FILES
lcms_negative_fat_CW-f8_H1918.CDF
FILES
lcms_negative_fat_CW-f9_H1919.CDF
FILES
lcms_negative_islet_CW-i10_H1920.CDF
FILES
lcms_negative_islet_CW-i11_H1921.CDF
FILES
lcms_negative_islet_CW-i12_H1928.CDF
FILES
lcms_negative_islet_CW-i13_H1930.CDF
FILES
lcms_negative_islet_CW-i14_H1931.CDF
FILES
lcms_negative_islet_CW-i15_H1933.CDF
FILES
lcms_negative_islet_CW-i16_H1937.CDF
FILES
lcms_negative_islet_CW-i17_H1939.CDF
FILES
lcms_negative_islet_CW-i18_H1943.CDF
FILES
lcms_negative_islet_CW-i19_H1948.CDF
FILES
lcms_negative_islet_CW-i1_H1717.CDF
FILES
lcms_negative_islet_CW-i20_H1950.CDF
FILES
lcms_negative_islet_CW-i21_H1955.CDF
FILES
lcms_negative_islet_CW-i22_H1956.CDF
FILES
lcms_negative_islet_CW-i23_H1957.CDF
FILES
lcms_negative_islet_CW-i24_H1961.CDF
FILES
lcms_negative_islet_CW-i25_H1962.CDF
FILES
lcms_negative_islet_CW-i26_H1980.CDF
FILES
lcms_negative_islet_CW-i27_H1981.CDF
FILES
lcms_negative_islet_CW-i28_H2002.CDF
FILES
lcms_negative_islet_CW-i29_H2016.CDF
FILES
lcms_negative_islet_CW-i2_H1784.CDF
FILES
lcms_negative_islet_CW-i30_H2017.CDF
FILES
lcms_negative_islet_CW-i31_H2027.CDF
FILES
lcms_negative_islet_CW-i32_H2051.CDF
FILES
lcms_negative_islet_CW-i34_H2056.CDF
FILES
lcms_negative_islet_CW-i35_H2060.CDF
FILES
lcms_negative_islet_CW-i36_H2061.CDF
FILES
lcms_negative_islet_CW-i37_H2063.CDF
FILES
lcms_negative_islet_CW-i38_H2070.CDF
FILES
lcms_negative_islet_CW-i39_H2077.CDF
FILES
lcms_negative_islet_CW-i40_H2088.CDF
FILES
lcms_negative_islet_CW-i41_H2107.CDF
FILES
lcms_negative_islet_CW-i42_H2108.CDF
FILES
lcms_negative_islet_CW-i43_H2117.CDF
FILES
lcms_negative_islet_CW-i44_H2132.CDF
FILES
lcms_negative_islet_CW-i45_H2133.CDF
FILES
lcms_negative_islet_CW-i46_H2134.CDF
FILES
lcms_negative_islet_CW-i4_H1857.CDF
FILES
lcms_negative_islet_CW-i50_H1848.CDF
FILES
lcms_negative_islet_CW-i5_H1863.CDF
FILES
lcms_negative_islet_CW-i6_H1912.CDF
FILES
lcms_negative_islet_CW-i7_H1913.CDF
FILES
lcms_negative_islet_CW-i8_H1918.CDF
FILES
lcms_negative_islet_CW-i9_H1919.CDF
FILES
lcms_negative_liver_CW-l10_H1920.CDF
FILES
lcms_negative_liver_CW-l11_H1921.CDF
FILES
lcms_negative_liver_CW-l12_H1928.CDF
FILES
lcms_negative_liver_CW-l13_H1930.CDF
FILES
lcms_negative_liver_CW-l14_H1931.CDF
FILES
lcms_negative_liver_CW-l15_H1933.CDF
FILES
lcms_negative_liver_CW-l16_H1937.CDF
FILES
lcms_negative_liver_CW-l17_H1939.CDF
FILES
lcms_negative_liver_CW-l18_H1943.CDF
FILES
lcms_negative_liver_CW-l19_H1948.CDF
FILES
lcms_negative_liver_CW-l1_H1717.CDF
FILES
lcms_negative_liver_CW-l20_H1950.CDF
FILES
lcms_negative_liver_CW-l21_H1955.CDF
FILES
lcms_negative_liver_CW-l22_H1956.CDF
FILES
lcms_negative_liver_CW-l23_H1957.CDF
FILES
lcms_negative_liver_CW-l24_H1961.CDF
FILES
lcms_negative_liver_CW-l25_H1962.CDF
FILES
lcms_negative_liver_CW-l26_H1980.CDF
FILES
lcms_negative_liver_CW-l27_H1981.CDF
FILES
lcms_negative_liver_CW-l28_H2002.CDF
FILES
lcms_negative_liver_CW-l2_H1784.CDF
FILES
lcms_negative_liver_CW-l30_H2017.CDF
FILES
lcms_negative_liver_CW-l31_H2027.CDF
FILES
lcms_negative_liver_CW-l32_H2051.CDF
FILES
lcms_negative_liver_CW-l33_H2054.CDF
FILES
lcms_negative_liver_CW-l34_H2056.CDF
FILES
lcms_negative_liver_CW-l35_H2060.CDF
FILES
lcms_negative_liver_CW-l36_H2061.CDF
FILES
lcms_negative_liver_CW-l37_H2063.CDF
FILES
lcms_negative_liver_CW-l38_H2070.CDF
FILES
lcms_negative_liver_CW-l39_H2077.CDF
FILES
lcms_negative_liver_CW-l40_H2088.CDF
FILES
lcms_negative_liver_CW-l41_H2107.CDF
FILES
lcms_negative_liver_CW-l42_H2108.CDF
FILES
lcms_negative_liver_CW-l43_H2117.CDF
FILES
lcms_negative_liver_CW-l44_H2132.CDF
FILES
lcms_negative_liver_CW-l45_H2133.CDF
FILES
lcms_negative_liver_CW-l46_H2134.CDF
FILES
lcms_negative_liver_CW-l4_H1857.CDF
FILES
lcms_negative_liver_CW-l50_H1848.CDF
FILES
lcms_negative_liver_CW-l5_H1863.CDF
FILES
lcms_negative_liver_CW-l6_H1912.CDF
FILES
lcms_negative_liver_CW-l7_H1913.CDF
FILES
lcms_negative_liver_CW-l8_H1918.CDF
FILES
lcms_negative_liver_CW-l9_H1919.CDF
FILES
lcms_negative_muscle_CW-m10_H1920.CDF
FILES
lcms_negative_muscle_CW-m11_H1921.CDF
FILES
lcms_negative_muscle_CW-m12_H1928.CDF
FILES
lcms_negative_muscle_CW-m13_H1930.CDF
FILES
lcms_negative_muscle_CW-m14_H1931.CDF
FILES
lcms_negative_muscle_CW-m15_H1933.CDF
FILES
lcms_negative_muscle_CW-m16_H1937.CDF
FILES
lcms_negative_muscle_CW-m17_H1939.CDF
FILES
lcms_negative_muscle_CW-m18_H1943.CDF
FILES
lcms_negative_muscle_CW-m19_H1948.CDF
FILES
lcms_negative_muscle_CW-m1_H1717.CDF
FILES
lcms_negative_muscle_CW-m20_H1950.CDF
FILES
lcms_negative_muscle_CW-m21_H1955.CDF
FILES
lcms_negative_muscle_CW-m22_H1956.CDF
FILES
lcms_negative_muscle_CW-m23_H1957.CDF
FILES
lcms_negative_muscle_CW-m24_H1961.CDF
FILES
lcms_negative_muscle_CW-m25_H1962.CDF
FILES
lcms_negative_muscle_CW-m26_H1980.CDF
FILES
lcms_negative_muscle_CW-m27_H1981.CDF
FILES
lcms_negative_muscle_CW-m28_H2002.CDF
FILES
lcms_negative_muscle_CW-m29_H2016.CDF
FILES
lcms_negative_muscle_CW-m2_H1784.CDF
FILES
lcms_negative_muscle_CW-m30_H2017.CDF
FILES
lcms_negative_muscle_CW-m31_H2027.CDF
FILES
lcms_negative_muscle_CW-m32_H2051.CDF
FILES
lcms_negative_muscle_CW-m33_H2054.CDF
FILES
lcms_negative_muscle_CW-m34_H2056.CDF
FILES
lcms_negative_muscle_CW-m35_H2060.CDF
FILES
lcms_negative_muscle_CW-m36_H2061.CDF
FILES
lcms_negative_muscle_CW-m37_H2063.CDF
FILES
lcms_negative_muscle_CW-m38_H2070.CDF
FILES
lcms_negative_muscle_CW-m39_H2077.CDF
FILES
lcms_negative_muscle_CW-m40_H2088.CDF
FILES
lcms_negative_muscle_CW-m41_H2107.CDF
FILES
lcms_negative_muscle_CW-m42_H2108.CDF
FILES
lcms_negative_muscle_CW-m43_H2117.CDF
FILES
lcms_negative_muscle_CW-m44_H2132.CDF
FILES
lcms_negative_muscle_CW-m45_H2133.CDF
FILES
lcms_negative_muscle_CW-m46_H2134.CDF
FILES
lcms_negative_muscle_CW-m4_H1857.CDF
FILES
lcms_negative_muscle_CW-m50_H1848.CDF
FILES
lcms_negative_muscle_CW-m5_H1863.CDF
FILES
lcms_negative_muscle_CW-m6_H1912.CDF
FILES
lcms_negative_muscle_CW-m7_H1913.CDF
FILES
lcms_negative_muscle_CW-m8_H1918.CDF
FILES
lcms_negative_muscle_CW-m9_H1919.CDF
FILES
lcms_negative_serum_CW-s10_H1920.CDF
FILES
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lcms_positive_liver_CW-l19_H1948.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 42%|████▏     | 705/1674 [1:28:46<2:30:41,  9.33s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Assay_MS Assay Name
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 679 rows!
Added 679 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS118
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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 42%|████▏     | 707/1674 [1:28:53<1:40:04,  6.21s/it]
  nan: missing value
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IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
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IGNORED:  Samples_Time point
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Infection
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IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 10
Returning 10 rows!
Added 10 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS166
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS310
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 320 rows!
Added 320 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS691
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Well Position
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 32
Returning 111 rows!
Added 111 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS694
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-S QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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PipelineTesting_RPOS_ToF10_U1W83_LTR.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 42%|████▏     | 710/1674 [1:29:28<2:36:16,  9.73s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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FILES
PipelineTesting_RPOS_ToF10_U1W84_SR.mzML
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PipelineTesting_RPOS_ToF10_U1W95_LTR.mzML
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PipelineTesting_RPOS_ToF10_U1W96_SR.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
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IGNORED:  base
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Dilution
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 12
Returning 201 rows!
Added 201 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS696
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
180126_ESR_Wilson_AlainRepeat_MurineCellPellet_Exp1_AOAA_1.raw
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180126_ESR_Wilson_AlainRepeat_MurineCellPellet_Pool_inj9.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Variant
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IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Treated
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Infected
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Samples_Biological Replicate
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Technical Replicate
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 26 rows!
Added 26 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS313
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS698
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS701
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 43%|████▎     | 714/1674 [1:29:41<1:17:56,  4.87s/it]
 43%|████▎     | 715/1674 [1:29:43<1:05:49,  4.12s/it]
  nan: missing value
FILES
150702_PMA_SZ_BM_ddMS2_neg.mzXML
FILES
150702_PMA_SZ_B_ddMS2_neg.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_A9
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_A11
IGNORED:  Samples_Variety
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_B5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Origin
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_B2
IGNORED:  Assay_Protocol REF.4
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IGNORED:  Samples_Term Source REF.8
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 1
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS705
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS121
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS25
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS708
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Samples_Organism part/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Protocol REF.2
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Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS709
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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pos_MM8_1-F,8_01_17283.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 43%|████▎     | 719/1674 [1:30:12<1:59:05,  7.48s/it]
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Source REF.19
IGNORED:  Samples_Term Source REF.22
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.18
IGNORED:  Samples_Term Accession Number.24
IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Term Accession Number.21
IGNORED:  Samples_Term Accession Number.25
IGNORED:  Samples_Family
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Ellenberg Moisture index
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Term Accession Number.17
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Ellenberg Light index
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Accession Number.23
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IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Term Accession Number.20
IGNORED:  Samples_Term Source REF.17
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IGNORED:  Samples_Term Source REF.26
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Accession Number.19
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Samples_Term Source REF.20
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Term Accession Number.16
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Samples_Term Source REF.25
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF.23
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IGNORED:  Assay_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  keep
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IGNORED:  Samples_Term Accession Number.26
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IGNORED:  Samples_Term Accession Number.14
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Samples_Growth form
IGNORED:  Samples_Onsite Moisture
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.27
IGNORED:  Samples_Gametangia distribution
IGNORED:  Assay_Protocol REF.4
IGNORED:  Samples_Onsite Exposition
IGNORED:  Samples_Term Source REF.8
IGNORED:  row_id
IGNORED:  Samples_Ellenberg Life form index
IGNORED:  Samples_Term Source REF.14
IGNORED:  Samples_Ellenberg Continentality index
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Term Source REF.18
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IGNORED:  Samples_Variant
IGNORED:  Samples_Term Source REF.24
IGNORED:  Assay_Acquisition parameter
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Sexual reproduction frequency
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Source REF.21
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_Life strategy
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Term Accession Number.15
IGNORED:  Samples_LCMS Date
IGNORED:  Is Descendant
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Substrate
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Onsite Light
IGNORED:  Samples_Term Source REF.16
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Term Accession Number.22
IGNORED:  Samples_Term Accession Number.27
IGNORED:  Samples_Mean spore size
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Term Source REF.15
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 42
Returning 84 rows!
Added 84 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7118
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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IGNORED:  Samples_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 43%|████▎     | 720/1674 [1:30:22<2:10:39,  8.22s/it]
IGNORED:  Samples_Term Accession Number
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Number of rows removed due to not enough metadata: 0
Returning 207 rows!
Added 207 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7181
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 428 rows!
Added 428 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS720
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS721
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX TripleTOF 5600+: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
1-1-1.mzML
FILES
1-2-1.mzML
FILES
1-3-1.mzML
FILES
10-1-10.mzML
FILES
10-2-10.mzML
FILES
10-3-10.mzML
FILES
2-1-2.mzML
FILES
2-2-2.mzML
FILES
2-3-2.mzML
FILES
3-1-3.mzML
FILES
3-2-3.mzML
FILES
3-3-3.mzML
FILES
4-1-4.mzML
FILES
4-2-4.mzML
FILES
4-3-4.mzML
FILES
5-1-5.mzML
FILES
5-2-5.mzML
FILES
5-3-5.mzML
FILES
6-1-6.mzML
FILES
6-2-6.mzML
FILES
6-3-6.mzML
FILES
8-1-8.mzML
FILES
8-2-8.mzML
FILES
8-3-8.mzML
FILES
9-1-9.mzML
FILES
9-2-9.mzML
FILES
9-3-9.mzML
FILES
QC 01.mzML
FILES
QC 02.mzML
FILES
QC 03.mzML
FILES
QC 04.mzML
FILES
QC2 01.mzML
FILES
QC2 02.mzML
FILES
QC2 03.mzML
FILES
QC2 04.mzML
FILES
blank 10-2-blank 10.mzML
FILES
blank 12-2-blank 12.mzML
FILES
blank 13-2-blank 13.mzML
FILES
blank 2.mzML
FILES
blank 3-1-blank 3.mzML
FILES
blank 3-2-blank 3.mzML
FILES
blank 3.mzML
FILES
blank 4-balnk 4.mzML
FILES
blank 5-2-blank 5.mzML
FILES
blank 6-2-blank 6.mzML
FILES
blank 6.mzML
FILES
blank 7-2-blank 7.mzML
FILES
blank 8-2-blank 8.mzML
FILES
blank 9-2-blank 9.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Cell treatment
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 49 rows!
Added 49 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7236
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS724
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS729
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS733
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
SA1.raw
FILES
SA2.raw
FILES
SA3.raw
FILES
SA4.raw
FILES
SA5.raw
FILES
SB1.raw
FILES
SB2.raw
FILES
SB3.raw
FILES
SB4.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 43%|████▎     | 727/1674 [1:30:55<1:02:45,  3.98s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 43%|████▎     | 728/1674 [1:31:00<1:06:15,  4.20s/it]
FILES
SB5.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 10 rows!
Added 10 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS738
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker maXis impact UHR-QTOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
SL05_10_RD2_01_4279.mzXML
FILES
SL05_10_RD2_01_4361.mzXML
FILES
SL05_11_RD3_01_4300.mzXML
FILES
SL05_11_RD3_01_4382.mzXML
FILES
SL05_12_RD4_01_4247.mzXML
FILES
SL05_12_RD4_01_4329.mzXML
FILES
SL05_13_RD5_01_4310.mzXML
FILES
SL05_13_RD5_01_4392.mzXML
FILES
SL05_14_RD6_01_4299.mzXML
FILES
SL05_14_RD6_01_4381.mzXML
FILES
SL05_15_RD7_01_4255.mzXML
FILES
SL05_15_RD7_01_4337.mzXML
FILES
SL05_1_RC1_01_4259.mzXML
FILES
SL05_1_RC1_01_4341.mzXML
FILES
SL05_2_RC2_01_4250.mzXML
FILES
SL05_2_RC2_01_4332.mzXML
FILES
SL05_3_RC3_01_4293.mzXML
FILES
SL05_3_RC3_01_4375.mzXML
FILES
SL05_4_RC4_01_4268.mzXML
FILES
SL05_4_RC4_01_4350.mzXML
FILES
SL05_5_RC5_01_4284.mzXML
FILES
SL05_5_RC5_01_4366.mzXML
FILES
SL05_6_RC6_01_4276.mzXML
FILES
SL05_6_RC6_01_4358.mzXML
FILES
SL05_7_RC7_01_4311.mzXML
FILES
SL05_7_RC7_01_4393.mzXML
FILES
SL05_8_RC8_01_4295.mzXML
FILES
SL05_8_RC8_01_4377.mzXML
FILES
SL05_9_RD1_01_4260.mzXML
FILES
SL05_9_RD1_01_4342.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Unit
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_Fresh tissue extracted
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Accession
IGNORED:  Assay_Fold dilution
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS127
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
FILES
C2C12 1 RESV 0uM NEG.mzML
FILES
C2C12 1 RESV 0uM POS.mzML
FILES
C2C12 1 RESV 200uM NEG.mzML
FILES
C2C12 1 RESV 200uM POS.mzML
FILES
C2C12 1 RESV 20uM NEG.mzML
FILES
C2C12 1 RESV 20uM POS.mzML
FILES
C2C12 2 RESV 0uM NEG.mzML
FILES
C2C12 2 RESV 0uM POS.mzML
FILES
C2C12 2 RESV 200uM NEG.mzML
FILES
C2C12 2 RESV 200uM POS.mzML
FILES
C2C12 2 RESV 20uM NEG.mzML
FILES
C2C12 2 RESV 20uM POS.mzML
FILES
C2C12 3 RESV 0uM NEG.mzML
FILES
C2C12 3 RESV 0uM POS.mzML
FILES
C2C12 3 RESV 200uM NEG.mzML
FILES
C2C12 3 RESV 200uM POS.mzML
FILES
C2C12 3 RESV 20uM NEG.mzML
FILES
C2C12 3 RESV 20uM POS.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Cell line
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 44%|████▎     | 729/1674 [1:31:04<1:05:08,  4.14s/it]
 44%|████▎     | 730/1674 [1:31:06<53:35,  3.41s/it]  
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Resveratrol concentration
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS178
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS542
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific High Field Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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VT_150921_177.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▎     | 731/1674 [1:31:47<3:51:50, 14.75s/it]
 44%|████▎     | 732/1674 [1:31:49<2:52:15, 10.97s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▍     | 733/1674 [1:31:53<2:18:13,  8.81s/it]
FILES
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VT_150921_189.cdf
FILES
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FILES
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FILES
VT_150921_192.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.5
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IGNORED:  Samples_Organism part
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 2340 rows!
Added 2340 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS742
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5662
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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NEG
MLTCGL1_N.mzML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Derived Spectral Data File.1
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IGNORED:  filename_lower
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IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Leaf colour
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS745
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
MB231_Arg-24h_TCA_AA_004.raw
FILES
MB231_Arg-24h_TCA_AA_005.raw
FILES
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FILES
MB231_Ctrl_TCA_AA_002.raw
FILES
MB231_Ctrl_TCA_AA_003.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▍     | 734/1674 [1:31:57<1:54:27,  7.31s/it]
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Duration
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 9 rows!
Added 9 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS749
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
10_Rep1_NEG.mzML
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10_Rep1_POS.mzML
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27_Rep2_POS.mzML
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28_Rep2_POS.mzML
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29_Rep2_POS.mzML
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2_Rep1_NEG.mzML
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2_Rep2_NEG.mzML
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74_Rep1_NEG.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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Number of rows removed due to not enough metadata: 0
Returning 494 rows!
Added 494 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS13
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS37
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▍     | 737/1674 [1:32:14<1:28:49,  5.69s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▍     | 738/1674 [1:32:18<1:18:51,  5.06s/it]
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus 4D: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
mut_t1_a.cdf
FILES
mut_t1_b.cdf
FILES
mut_t1_c.cdf
FILES
mut_t2_a.cdf
FILES
mut_t2_b.cdf
FILES
mut_t2_c.cdf
FILES
wt_t1_a.cdf
FILES
wt_t1_b.cdf
FILES
wt_t1_c.cdf
FILES
wt_t2_a.cdf
FILES
wt_t2_b.cdf
FILES
wt_t2_c.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Term Source REF.8
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Term Accession Number
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IGNORED:  base
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Column model 2
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Cell Phase
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Column model 1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS750
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
IN-12052017-pHILIC-Muscle-360-WT-1.raw
FILES
IN-12052017-pHILIC-Muscle-361-WT-2.raw
FILES
IN-12052017-pHILIC-Muscle-364-KO-3.raw
FILES
IN-12052017-pHILIC-Muscle-365-KO-4.raw
FILES
IN-12052017-pHILIC-Muscle-366-KO-5.raw
FILES
IN-12052017-pHILIC-Muscle-381-KO-6.raw
FILES
IN-12052017-pHILIC-Muscle-382-WT-7.raw
FILES
IN-12052017-pHILIC-Muscle-383-KO-8.raw
FILES
IN-12052017-pHILIC-Muscle-384-KO-9.raw
FILES
IN-12052017-pHILIC-Muscle-385-KO-10.raw
FILES
IN-12052017-pHILIC-Muscle-386-WT-11.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Is Descendant
IGNORED:  Assay_Scan m/z range
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Knockout
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 11 rows!
Added 11 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS751
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q-Exactive Orbitrap mass spectrometer (Thermo Fisher): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
P6-1-0.raw
FILES
P6-1-1-C.raw
FILES
P6-1-1-P.raw
FILES
P6-1-24-C.raw
FILES
P6-1-24-P.raw
FILES
P6-1-4-C.raw
FILES
P6-1-4-P.raw
FILES
P6-2-0.raw
FILES
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FILES
P6-2-1-P.raw
FILES
P6-2-24-C.raw
FILES
P6-2-24-P.raw
FILES
P6-2-4-C.raw
FILES
P6-2-4-P.raw
FILES
P6-3-0.raw
FILES
P6-3-1-C.raw
FILES
P6-3-1-P.raw
FILES
P6-3-24-C.raw
FILES
P6-3-24-P.raw
FILES
P6-3-4-C.raw
FILES
P6-3-4-P.raw
FILES
P6-4-0.raw
FILES
P6-4-1-C.raw
FILES
P6-4-1-P.raw
FILES
P6-4-24-C.raw
FILES
P6-4-24-P.raw
FILES
P6-4-4-C.raw
FILES
P6-4-4-P.raw
FILES
P6-5-0.raw
FILES
P6-5-1-C.raw
FILES
P6-5-1-P.raw
FILES
P6-5-24-C.raw
FILES
P6-5-24-P.raw
FILES
P6-5-4-C.raw
FILES
P6-5-4-P.raw
FILES
P6_Control_1h_1.raw
FILES
P6_Control_1h_2.raw
FILES
P6_Control_1h_3.raw
FILES
P6_Control_1h_4.raw
FILES
P6_PMB8_1h_1.raw
FILES
P6_PMB8_1h_2.raw
FILES
P6_PMB8_1h_3.raw
FILES
P6_PMB8_1h_4.raw
FILES
PAK-1-0.raw
FILES
PAK-1-1-C.raw
FILES
PAK-1-1-P.raw
FILES
PAK-1-24-C.raw
FILES
PAK-1-24-P.raw
FILES
PAK-1-4-C.raw
FILES
PAK-1-4-P.raw
FILES
PAK-2-0.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▍     | 739/1674 [1:32:24<1:23:13,  5.34s/it]
FILES
PAK-2-1-C.raw
FILES
PAK-2-1-P.raw
FILES
PAK-2-24-C.raw
FILES
PAK-2-24-P.raw
FILES
PAK-2-4-C.raw
FILES
PAK-2-4-P.raw
FILES
PAK-3-0.raw
FILES
PAK-3-1-C.raw
FILES
PAK-3-1-P.raw
FILES
PAK-3-24-C.raw
FILES
PAK-3-24-P.raw
FILES
PAK-3-4-C.raw
FILES
PAK-3-4-P.raw
FILES
PAK-4-0.raw
FILES
PAK-4-1-C.raw
FILES
PAK-4-1-P.raw
FILES
PAK-4-24-C.raw
FILES
PAK-4-24-P.raw
FILES
PAK-4-4-C.raw
FILES
PAK-4-4-P.raw
FILES
PAK-5-0.raw
FILES
PAK-5-1-C.raw
FILES
PAK-5-1-P.raw
FILES
PAK-5-24-C.raw
FILES
PAK-5-24-P.raw
FILES
PAK-5-4-C.raw
FILES
PAK-5-4-P.raw
FILES
PAK_Control_1h_1.raw
FILES
PAK_Control_1h_2.raw
FILES
PAK_Control_1h_3.raw
FILES
PAK_Control_1h_4.raw
FILES
PAK_PMB8_1h_1.raw
FILES
PAK_PMB8_1h_2.raw
FILES
PAK_PMB8_1h_3.raw
FILES
PAK_PMB8_1h_4.raw
FILES
QC1.raw
FILES
QC2.raw
FILES
QC3.raw
FILES
QC4.raw
FILES
QC5.raw
FILES
QC6.raw
FILES
QC7.raw
FILES
QC8.raw
FILES
Standard_1.raw
FILES
Standard_2.raw
FILES
Standard_3.raw
FILES
Standard_4.raw
FILES
Standard_5.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Accession Number.2
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Number of rows removed due to not enough metadata: 5
Returning 94 rows!
Added 94 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS754
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Waters Xevo G2-S Tof: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Study2_NEG_Blank11.mzXML
FILES
Study2_NEG_Blank12.mzXML
FILES
Study2_NEG_Blank13.mzXML
FILES
Study2_NEG_Blank14.mzXML
FILES
Study2_NEG_Blank15.mzXML
FILES
Study2_NEG_QC01.mzXML
FILES
Study2_NEG_QC02.mzXML
FILES
Study2_NEG_QC03.mzXML
FILES
Study2_NEG_QC04.mzXML
FILES
Study2_NEG_QC05.mzXML
FILES
Study2_NEG_QC06.mzXML
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Study2_NEG_Sample01n01.mzXML
FILES
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Study2_NEG_Sample01n03.mzXML
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FILES
Study2_NEG_Sample02n01.mzXML
FILES
Study2_NEG_Sample02n02.mzXML
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Study2_NEG_Sample04n03.mzXML
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Study2_POS_Blank11.mzXML
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Study2_POS_Sample12n04.mzXML
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▍     | 740/1674 [1:32:30<1:27:53,  5.65s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▍     | 741/1674 [1:32:38<1:39:50,  6.42s/it]
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Injection order
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Geographical origin
IGNORED:  Samples_Spiking mix
IGNORED:  Assay_Scan m/z range
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Brand
IGNORED:  Assay_Post Extraction
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 116 rows!
Added 116 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS755
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20180220_HILIC_250ul_APLEUCO.mzML
FILES
20180220_HILIC_250ul_BMOOJI.mzML
FILES
20180220_HILIC_250ul_BMULTI.mzML
FILES
20180220_HILIC_250ul_CCERASTES.mzML
FILES
20180220_HILIC_250ul_CTERRIFICUS.mzML
FILES
20180220_HILIC_250ul_CVIVIRIDI.mzML
FILES
20180220_HILIC_250ul_DPOLY.mzML
FILES
20180220_HILIC_250ul_DSIAMENS.mzML
FILES
20180220_HILIC_250ul_MSPIXI.mzML
FILES
20180220_HILIC_250ul_MSURINAM_1.mzML
FILES
20180220_HILIC_250ul_MSURINAM_2.mzML
FILES
20180220_HILIC_250ul_MSURINAM_3.mzML
FILES
20180220_HILIC_250ul_NAJA.mzML
FILES
20180220_HILIC_250ul_OHANNAH.mzML
FILES
20180220_HILIC_250ul_OKINAMENSIS.mzML
FILES
20180220_HILIC_250ul_PELEGANS.mzML
FILES
20180220_HILIC_250ul_PFLAVO.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Samples_Snake species
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Organism
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Snake family
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 17 rows!
Added 17 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS756
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters LCT Premier: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
FD002.CDF
FILES
FD003.CDF
FILES
FD004.CDF
FILES
FD005.CDF
FILES
FD006.CDF
FILES
FD007.CDF
FILES
FD008.CDF
FILES
FD009.CDF
FILES
FD010.CDF
FILES
FD011.CDF
FILES
FD012.CDF
FILES
FD013.CDF
FILES
FD015.CDF
FILES
FD017.CDF
FILES
FD018.CDF
FILES
FD019.CDF
FILES
FD020.CDF
FILES
FD021.CDF
FILES
FD022.CDF
FILES
FD023.CDF
FILES
FD024.CDF
FILES
FD025.CDF
FILES
FD026.CDF
FILES
FD027.CDF
FILES
FD028.CDF
FILES
FD029.CDF
FILES
FD030.CDF
FILES
FD031.CDF
FILES
FD032.CDF
FILES
FD033.CDF
FILES
FD034.CDF
FILES
FD035.CDF
FILES
FD036.CDF
FILES
FD037.CDF
FILES
FD038.CDF
FILES
FD039.CDF
FILES
FD049.CDF
FILES
FD052.CDF
FILES
FD053.CDF
FILES
FD054.CDF
FILES
FD055.CDF
FILES
FD056.CDF
FILES
FD057.CDF
FILES
FD058.CDF
FILES
FD059.CDF
FILES
FD060.CDF
FILES
FD061.CDF
FILES
FD062.CDF
FILES
FD069.CDF
FILES
FD070.CDF
FILES
FD071.CDF
FILES
FD072.CDF
FILES
FD074.CDF
FILES
FD075.CDF
FILES
FD077.CDF
FILES
FD078.CDF
FILES
FD079.CDF
FILES
FD080.CDF
FILES
FD081.CDF
FILES
FD082.CDF
FILES
FD083.CDF
FILES
FD084.CDF
FILES
FD085.CDF
FILES
FD086.CDF
FILES
FD087.CDF
FILES
FD088.CDF
FILES
FD089.CDF
FILES
FD090.CDF
FILES
FD093.CDF
FILES
FD094.CDF
FILES
FD095.CDF
FILES
FD097.CDF
FILES
FD098.CDF
FILES
FD099.CDF
FILES
FD100.CDF
FILES
FD101.CDF
FILES
FD102.CDF
FILES
FD103.CDF
FILES
FD105.CDF
FILES
FD106.CDF
FILES
FD107.CDF
FILES
FD108.CDF
FILES
FD109.CDF
FILES
FD110.CDF
FILES
FD111.CDF
FILES
FD112.CDF
FILES
FD113.CDF
FILES
FD114.CDF
FILES
FD115.CDF
FILES
FD116.CDF
FILES
FD117.CDF
FILES
FD118.CDF
FILES
FD119.CDF
FILES
FD120.CDF
FILES
FD121.CDF
FILES
FD122.CDF
FILES
FD123.CDF
FILES
FD124.CDF
FILES
FD125.CDF
FILES
FD126.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▍     | 742/1674 [1:32:44<1:36:16,  6.20s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 44%|████▍     | 743/1674 [1:32:48<1:24:42,  5.46s/it]
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_variety
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_location
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 100 rows!
Added 100 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS757
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
FFA_AA#10.mzML
FILES
FFA_AA#11.mzML
FILES
FFA_AA#12.mzML
FILES
FFA_BSA#1.mzML
FILES
FFA_BSA#2.mzML
FILES
FFA_BSA#3.mzML
FILES
FFA_LA#7.mzML
FILES
FFA_LA#8.mzML
FILES
FFA_LA#9.mzML
FILES
FFA_PA#4.mzML
FILES
FFA_PA#5.mzML
FILES
FFA_PA#6.mzML
FILES
FLUIDITY_AA#4.mzML
FILES
FLUIDITY_AA#5.mzML
FILES
FLUIDITY_AA#6.mzML
FILES
FLUIDITY_CON#1.mzML
FILES
FLUIDITY_CON#2.mzML
FILES
FLUIDITY_CON#3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_incubation
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_replicate
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS187
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
FILES
Acetate_Propionate_Mat Sample_01_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_01_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_01_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_01_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_01_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_01_C_2.CDF
FILES
Acetate_Propionate_Mat Sample_02_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_02_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_02_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_02_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_02_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_02_C_2.CDF
FILES
Acetate_Propionate_Mat Sample_03_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_03_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_03_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_03_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_03_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_03_C_2.CDF
FILES
Acetate_Propionate_Mat Sample_04_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_04_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_04_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_04_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_04_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_04_C_2.CDF
FILES
Acetate_Propionate_Mat Sample_05_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_05_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_05_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_05_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_05_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_05_C_2.CDF
FILES
Acetate_Propionate_Mat Sample_06_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_06_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_06_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_06_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_06_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_06_C_2.CDF
FILES
Acetate_Propionate_Mat Sample_07_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_07_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_07_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_07_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_07_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_07_C_2.CDF
FILES
Acetate_Propionate_Mat Sample_08_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_08_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_08_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_08_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_08_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_08_C_2.CDF
FILES
Acetate_Propionate_Mat Sample_09_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_09_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_09_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_09_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_09_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_09_C_2.CDF
FILES
Acetate_Propionate_Mat Sample_10_A_1.CDF
FILES
Acetate_Propionate_Mat Sample_10_A_2.CDF
FILES
Acetate_Propionate_Mat Sample_10_B_1.CDF
FILES
Acetate_Propionate_Mat Sample_10_B_2.CDF
FILES
Acetate_Propionate_Mat Sample_10_C_1.CDF
FILES
Acetate_Propionate_Mat Sample_10_C_2.CDF
FILES
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Wax_Mat_Sample_12_A_2.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Wax_Mat_Sample_12_B_1.CDF
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IGNORED:  Assay_Technical Replicate Number
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Samples_Time collected
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Samples_Sample Replicate
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 342
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS267
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Person23_RBC_elder_POS.mzML
FILES
Person24_RBC_elder_NEG.mzML
FILES
Person24_RBC_elder_POS.mzML
FILES
Person25_RBC_elder_NEG.mzML
FILES
Person25_RBC_elder_POS.mzML
FILES
Person26_RBC_elder_NEG.mzML
FILES
Person26_RBC_elder_POS.mzML
FILES
Person27_RBC_youth_NEG.mzML
FILES
Person27_RBC_youth_POS.mzML
FILES
Person28_RBC_youth_NEG.mzML
FILES
Person28_RBC_youth_POS.mzML
FILES
Person29_RBC_elder_NEG.mzML
FILES
Person29_RBC_elder_POS.mzML
FILES
Person30_RBC_elder_NEG.mzML
FILES
Person30_RBC_elder_POS.mzML
IGNORED:  Samples_Age group
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 45%|████▍     | 745/1674 [1:33:03<1:36:34,  6.24s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 45%|████▍     | 746/1674 [1:33:08<1:32:33,  5.98s/it]
 45%|████▍     | 747/1674 [1:33:10<1:10:48,  4.58s/it]
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS760
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES
HCS _01.CDF
FILES
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FILES
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FILES
HNC_05_A.CDF
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HNC_05_B.CDF
FILES
HNC_06.CDF
FILES
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FILES
HNC_08_B.CDF
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FILES
HNC_09_B.CDF
FILES
HNC_10.CDF
FILES
HNC_11.CDF
FILES
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FILES
HNC_13_A.CDF
FILES
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HNC_15_A.CDF
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FILES
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FILES
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FILES
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FILES
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HNC_27_A.CDF
FILES
HNC_27_B.CDF
FILES
HNC_28_A.CDF
FILES
HNC_29_A.CDF
FILES
HNC_29_B.CDF
FILES
HNC_30_A.CDF
FILES
HNC_30_B.CDF
FILES
HNC_31_A.CDF
FILES
HNC_31_B.CDF
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FILES
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FILES
HNc_28_B.CDF
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 92 rows!
Added 92 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS762
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS767
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus HT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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FILES
Guy_FA_C14_10ug_1.cdf
FILES
Guy_FA_C15_10ug_1.cdf
FILES
Guy_Frac1_1.cdf
FILES
Guy_Frac2_1.cdf
FILES
Guy_Frac3_1.cdf
FILES
Guy_Frac4_1.cdf
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 45%|████▍     | 748/1674 [1:33:13<1:06:48,  4.33s/it]
 45%|████▍     | 749/1674 [1:33:15<54:11,  3.52s/it]  
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS770
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS773
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Light
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Temperature
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 45%|████▍     | 750/1674 [1:33:22<1:12:05,  4.68s/it]IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 118 rows!
Added 118 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS64
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Population ID
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Type
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Country of origin
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_MFFGC accession no.
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 4135 rows!
Added 4135 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS774
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G2 HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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AUG31_IKE_3H-2A01.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IKE_BME-3A01.CDF
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IKE_BME-3B-POS01.CDF
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IKE_BME-3B01.CDF
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IKE_DFO-1A-POS01.CDF
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IKE_DFO-1A01.CDF
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IKE_DFO-2B-POS01.CDF
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IKE_DFO-2B01.CDF
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IKE_DFO-3A01.CDF
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IKE_DFO-3B-POS01.CDF
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IKE_FER-1A-POS01.CDF
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IKE_FER-1A01.CDF
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IKE_FER-2B01.CDF
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IKE_FER-3A-POS01.CDF
FILES
IKE_FER-3A01.CDF
FILES
IKE_FER-3B-POS01.CDF
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IKE_FER-3B01.CDF
FILES
SEP27-18-MATRIX-NEG-101.CDF
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SEP27-18-MATRIX-NEG-201.CDF
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FILES
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SEP29-18-BLANK-POS-201.CDF
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SEP29-18-MATRIX-POS-101.CDF
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SEP29-18-MATRIX-POS-1A01.CDF
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SEP29-18-MATRIX-POS-201.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Drug 1 concentration
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Drug 1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Cell line
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Category
IGNORED:  Samples_Animal model
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_replicate
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Drug 2
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Drug 2_1
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 17
Returning 196 rows!
Added 196 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS775
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20171130_ma_f2.raw
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20171204_ma_3-10a.raw
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20180226_MA_3-9b_infected_list2-570.3547.raw
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20180322_trans-trans-farnesol-223.2056-nceAverage.raw
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20180323_MA3_9B-280.2632.raw
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20180328_MA3_9B-260.1850.raw
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Lysophosphatidylcholine_pos.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 45%|████▍     | 753/1674 [1:36:40<8:19:56, 32.57s/it] /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
StandardsMix-b-carbolin_4-CTC_10ng-ml_1.raw
FILES
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FILES
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FILES
qc_3.raw
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qc_4.raw
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qc_5.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Parasite
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Health status
IGNORED:  row_id
Number of rows removed due to not enough metadata: 31
Returning 23 rows!
Added 23 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS777
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6540 Q-TOF: missing value
ChromatographyAndPhase:
   (Phenyl-Hexyl): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
Cali11.mzML
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Cali12.mzML
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Cali13.mzML
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Cali15.mzML
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Cali24.mzML
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Cali6.mzML
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Cali8.mzML
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Cali9.mzML
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Gra1.mzML
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Gra10.mzML
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FILES
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Gra2.mzML
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Gra22.mzML
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Gra9.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Coral species
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS650
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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SC_20171208_HILICp_PRM_KO1_T2.raw
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SC_20171208_HILICp_PRM_KO2_T1.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 45%|████▌     | 755/1674 [1:36:59<5:15:04, 20.57s/it]
FILES
SC_20171208_HILICp_PRM_KO2_T2.raw
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SC_20171209_HILICn_PRM_WT2_T2.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 86 rows!
Added 86 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS780
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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ChromatographyAndPhase:
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ENVOEnvironmentMaterial:
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FILES
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YJM978i_G3_2.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Extracellular/Intracellular
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 862 rows!
Added 862 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS781
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS406
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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21238 SSID Data MZML
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21238 SSID Data MZML
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21238 SSID Data MZML
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
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IGNORED:  Assay_Native spectrum identifier format
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IGNORED:  Assay_Term Accession Number.17/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 45%|████▌     | 758/1674 [1:38:43<8:55:42, 35.09s/it]
 45%|████▌     | 759/1674 [1:38:44<6:20:03, 24.92s/it]
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 2372 rows!
Added 2372 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7832
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS784
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT HDMS System: missing value
  Synapt HDMS QTOF MS (Waters, Manchester, UK): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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20180212_NEG_061_32_IMGC.mzML
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20180212_NEG_063_QC.mzML
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20180212_NEG_068_47_CMGC.mzML
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20180212_NEG_069_07_IBGC.mzML
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20180212_NEG_070_QC.mzML
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20180212_NEG_071_18_IBGT.mzML
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20180212_NEG_072_40_IMGT.mzML
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20180212_NEG_074_24_CBGT.mzML
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20180212_NEG_075_06_CBGC.mzML
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20180212_NEG_082_47_CMGC.mzML
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FILES
20180214_NEG_008_42_IMGT.mzML
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20180214_NEG_009_12_IBGC.mzML
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20180214_NEG_010_50_CMGC.mzML
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FILES
20180214_NEG_014_35_IMGC.mzML
FILES
20180214_NEG_015_60_CBGC.mzML
FILES
20180214_NEG_016_27_CBGT.mzML
FILES
20180214_NEG_017_22_CBGT.mzML
FILES
20180214_NEG_018_55_CMGT.mzML
FILES
20180214_NEG_019_04_CBGC.mzML
FILES
20180214_NEG_021_QC.mzML
FILES
20180214_NEG_022_39_IMGT.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 45%|████▌     | 760/1674 [1:38:53<5:06:09, 20.10s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 45%|████▌     | 761/1674 [1:39:00<4:06:36, 16.21s/it]
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FILES
20180214_NEG_023_36_IMGT.mzML
FILES
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FILES
20180214_NEG_025_23_CBGT.mzML
FILES
20180214_NEG_026_03_CBGC.mzML
FILES
20180214_NEG_027_14_IBGT.mzML
FILES
20180214_NEG_028_QC.mzML
FILES
20180214_NEG_029_31_IMGC.mzML
FILES
20180214_NEG_030_43_CMGC.mzML
FILES
20180214_NEG_031_48_CMGC.mzML
FILES
20180214_NEG_032_02_CBGV.mzML
FILES
20180214_NEG_033_15_IBGT.mzML
FILES
20180214_NEG_034_08_IBGC.mzML
FILES
20180214_NEG_035_QC.mzML
FILES
20180214_NEG_036_38_IMGT.mzML
FILES
20180214_NEG_037_29_CMGV.mzML
FILES
20180214_NEG_038_17_IBGT.mzML
FILES
20180214_NEG_039_59_CBGC.mzML
FILES
20180214_NEG_040_25_CBGT.mzML
FILES
20180214_NEG_041_10_IBGC.mzML
FILES
20180214_NEG_042_QC.mzML
FILES
20180214_NEG_043_49_CMGC.mzML
FILES
20180214_NEG_044_28_CMGV.mzML
FILES
20180214_NEG_045_05_CBGC.mzML
FILES
20180214_NEG_046_58_CBGC.mzML
FILES
20180214_NEG_047_20_IBGT.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Cultivar group
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 3
Returning 219 rows!
Added 219 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS276
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
01E6.raw
FILES
02E6.raw
FILES
03E6.raw
FILES
04E6.raw
FILES
05E6.raw
FILES
06E6.raw
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25E6.raw
FILES
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32E6.raw
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33E6_2.raw
FILES
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FILES
36E6_2.raw
FILES
43E6.raw
FILES
44E6.raw
FILES
45E6.raw
FILES
Control_1.raw
FILES
Control_2.raw
FILES
Control_2_2.raw
FILES
Control_3.raw
FILES
dA_2.raw
FILES
mdA_2.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  extension
IGNORED:  Is Organ
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Pulldown
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 31 rows!
Added 31 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS41
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6847
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS789
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus HT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
J101_1.cdf
FILES
J102_1.cdf
FILES
J103_1.cdf
FILES
J104_1.cdf
FILES
J105_1.cdf
FILES
J106_1.cdf
FILES
J160_1.cdf
FILES
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FILES
J165_1.cdf
FILES
J166_1.cdf
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FILES
Mo120_1.cdf
FILES
Mo121_1.cdf
FILES
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FILES
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FILES
Mo124_1.cdf
FILES
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FILES
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FILES
QC1_3.cdf
FILES
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FILES
QC1_5.cdf
FILES
QC2_1.cdf
FILES
QC2_2.cdf
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QC2_4.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 46%|████▌     | 764/1674 [1:39:07<1:52:45,  7.43s/it]
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Dose
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 25 rows!
Added 25 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS697
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_03.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_04.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_05.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_06.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_07.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_08.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_09.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_10.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_11.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_12.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_14.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_15.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_16.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_17.mzML
FILES
Method 1
QXA10POSEAR20160809_CHAL0116VW_YEAST_18.mzML
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 156 rows!
Added 156 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS797
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS798
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7986
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TRACE DSQ II: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
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ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7996
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific TRACE DSQ II: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 92 rows!
Added 92 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8002
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5071
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Is Fluid
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IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 46%|████▌     | 771/1674 [1:39:49<1:15:22,  5.01s/it]
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 56 rows!
Added 56 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS719
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Waters Xevo G2-S QTof: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
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U_RPOS_mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 2805 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS287
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5072
Request successful!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 46%|████▌     | 774/1674 [1:40:57<3:09:11, 12.61s/it]
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Number of rows removed due to not enough metadata: 0
Returning 7 rows!
Added 7 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS801
Request successful!
SampleCollectionMethod: ADDED!
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16037gf_12.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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16040gf_24.cdf
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16040gf_25.cdf
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16040gf_26.cdf
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.9
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Number of rows removed due to not enough metadata: 191
Returning 2663 rows!
Added 2663 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5148
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS804
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap XL: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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IGNORED:  Samples_Term Accession Number.7/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 46%|████▋     | 777/1674 [1:42:16<4:22:20, 17.55s/it]
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 182 rows!
Added 182 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS157
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
  Thermo Scientific TSQ Vantage: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_control
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_carbon source
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 46%|████▋     | 778/1674 [1:42:25<3:43:04, 14.94s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 47%|████▋     | 779/1674 [1:42:29<2:54:02, 11.67s/it]
 47%|████▋     | 780/1674 [1:42:30<2:07:03,  8.53s/it]
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_time
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 180 rows!
Added 180 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS805
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
IonizationSourceAndPolarity:
   (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20160816_DHB_pos_MALDI_Hopanoid_562.48_70_CE_100-600_A25.mzML
FILES
20160920_DHB_pos_B.puteoserpentis_cryo_MSMS_869.537_40eV_A31.mzML
FILES
20161012_Bathy_puteoserpentis_cryo_DHB_pos_FullMS_loop1_MSMS_20eV_scan_scenario_01_350-1400_5um_300x240_A33.mzML
FILES
20161028_DHB_pos_B._put_MSMS_813.46_50eV_A31.mzML
FILES
20161028_DHB_pos_B._put_MSMS_843.52_50eV_A31.mzML
FILES
MS9_20170212_DHB_pos_100-900_10um_10x10_A30_B.put_732_15eV_2.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Max dimension x
IGNORED:  Assay_Stain
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Assay_MALDI matrix application other
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Linescan sequence
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Target material
IGNORED:  Assay_MALDI matrix other
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Sample Growth Conditions Other
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Tissue modification
IGNORED:  Assay_Unit.3
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Unit.2
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Assay_High-res image
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  Assay_MALDI matrix
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Assay_Max dimension y
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Sectioning instrument
IGNORED:  Assay_Pixel size x
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_MALDI matrix application
IGNORED:  Samples_Sample Growth Conditions
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Resolving power
IGNORED:  Assay_Unit.5
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Scan type
IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Sample stabilisation
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Low-res image
IGNORED:  Assay_Alpha-tester
IGNORED:  keep
IGNORED:  Assay_Line scan direction
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Metabolite database other
IGNORED:  Assay_Max count of pixel x
IGNORED:  Samples_Pipeline stage
IGNORED:  Assay_Scan pattern
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Sample preservation
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Instrument software version
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Section thickness
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Pixel size y
IGNORED:  Assay_Solvent
IGNORED:  Assay_Spectrum representation
IGNORED:  filename_lower
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Metabolite database
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Tissue modification other
IGNORED:  Assay_Spatial resolution
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Sample stabilisation other
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS806
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS538
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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FILES
100H_1.CDF
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100S_1.CDF
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101H_1.CDF
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101S_1.CDF
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102H_1.CDF
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107S_1.CDF
FILES
108H_1.CDF
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109H_1.CDF
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109S_1.CDF
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10H_1.CDF
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10S_1.CDF
FILES
110H_1.CDF
FILES
110S_1.CDF
FILES
111H_1.CDF
FILES
111S_1.CDF
FILES
112H_1.CDF
FILES
112S_1.CDF
FILES
113H_1.CDF
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113S_1.CDF
FILES
114H_1.CDF
FILES
114S_1.CDF
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115H_1.CDF
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115S_1.CDF
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116H_1.CDF
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116S_1.CDF
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117H_1.CDF
FILES
117S_1.CDF
FILES
118H_1.CDF
FILES
118S_1.CDF
FILES
119H_1.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 47%|████▋     | 781/1674 [1:42:37<2:02:17,  8.22s/it]
 47%|████▋     | 782/1674 [1:42:39<1:32:21,  6.21s/it]
FILES
119S_1.CDF
FILES
11H_1.CDF
FILES
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FILES
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FILES
120S_1.CDF
FILES
12H_1.CDF
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25H_1.CDF
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25S_1.CDF
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26H_1.CDF
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28H_1.CDF
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9S_1.CDF
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Assay_Post Extraction
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IGNORED:  Assay_Protocol REF.3
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Number of rows removed due to not enough metadata: 0
Returning 108 rows!
Added 108 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS809
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS293
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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  Thermo Scientific TSQ Vantage: missing value
FILES
mtab_Harriet_ft_2014_1027_17.RAW
FILES
mtab_Harriet_ft_2014_1027_17.RAW
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mtab_Harriet_ft_2014_1027_18.RAW
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mtab_Harriet_ft_2014_1027_18.RAW
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mtab_Harriet_ft_2014_1027_65.RAW
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mtab_Harriet_ft_2014_1027_66.RAW
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mtab_Harriet_ft_2014_1027_66.RAW
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mtab_Harriet_ft_2014_1027_69.RAW
FILES
mtab_Harriet_ft_2014_1027_69.RAW
FILES
mtab_R1_Dyhram_2014_1017_22.raw
FILES
mtab_R1_Dyhram_2014_1017_22.raw
FILES
mtab_R1_Dyhram_2014_1017_23.raw
FILES
mtab_R1_Dyhram_2014_1017_23.raw
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mtab_R1_Dyhram_2014_1017_24.raw
FILES
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FILES
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mtab_R1_Dyhram_2014_1017_29.raw
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mtab_R1_Dyhram_2014_1017_29.raw
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FILES
mtab_R1_Dyhram_2014_1017_31.raw
FILES
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FILES
mtab_R1_Dyhram_2014_1017_32.raw
FILES
mtab_R1_Dyhram_2014_1017_33.raw
FILES
mtab_R1_Dyhram_2014_1017_33.raw
FILES
mtab_R1_Dyhram_2014_1017_34.raw
FILES
mtab_R1_Dyhram_2014_1017_34.raw
FILES
mtab_R1_Dyhram_2014_1017_36.raw
FILES
mtab_R1_Dyhram_2014_1017_36.raw
FILES
mtab_R1_Dyhram_2014_1017_37.raw
FILES
mtab_R1_Dyhram_2014_1017_37.raw
FILES
mtab_R1_Dyhram_2014_1017_40.raw
FILES
mtab_R1_Dyhram_2014_1017_40.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 47%|████▋     | 783/1674 [1:42:45<1:32:51,  6.25s/it]
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 90 rows!
Added 45 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS55
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
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LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES
A003_QC_H_RP_pos.mzML
FILES
A004_QC_C_RP_pos.mzML
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A006_QC_C_RP_pos.mzML
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FILES
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FILES
A010_2419_C_RP_pos.mzML
FILES
A011_2410_C_RP_pos.mzML
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A012_2420_C_RP_pos.mzML
FILES
A013_QC_H_RP_pos.mzML
FILES
A014_QC_C_RP_pos.mzML
FILES
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FILES
A016_2410_H_RP_pos.mzML
FILES
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A018_2418_C_RP_pos.mzML
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A019_2417_C_RP_pos.mzML
FILES
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A021_QC_C_RP_pos.mzML
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FILES
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B051_0220_R_RP_pos.mzML
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 47%|████▋     | 784/1674 [1:42:55<1:46:48,  7.20s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 47%|████▋     | 785/1674 [1:43:01<1:41:46,  6.87s/it]
F023_1811_C_RP_neg.mzML
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Number of rows removed due to not enough metadata: 0
Returning 229 rows!
Added 229 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS163
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
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Number of rows removed due to not enough metadata: 4
Returning 20 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5568
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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20180220_TOFI2_B4_HILIC_POS_038.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 796 rows!
Added 796 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS812
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS736
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
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FILES
SampleA_1.wiff
FILES
SampleA_2.wiff
FILES
SampleA_3.wiff
FILES
SampleA_4.wiff
FILES
SampleB_1.wiff
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SampleB_2.wiff
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Accession Number.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 47%|████▋     | 788/1674 [1:43:28<1:45:33,  7.15s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 47%|████▋     | 789/1674 [1:43:34<1:37:50,  6.63s/it]
 47%|████▋     | 790/1674 [1:43:36<1:18:40,  5.34s/it]
 47%|████▋     | 791/1674 [1:43:37<1:01:29,  4.18s/it]
IGNORED:  Samples_Source Name
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Number of rows removed due to not enough metadata: 0
Returning 8 rows!
Added 8 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS31
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 4000: missing value
FILES
012411flubatch1.wiff
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Number of rows removed due to not enough metadata: 0
Returning 5 rows!
Added 5 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5959
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3146
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS315
Request successful!
SampleCollectionMethod: ADDED!
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HealthStatus: ADDED!
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qiita_sample_name: ADDED!
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IGNORED:  Samples_Term Accession Number.23
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IGNORED:  Samples_Term Accession Number.28
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Source REF.21
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Term Accession Number.15
IGNORED:  Samples_Unit.6
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Samples_diff_neutrophils
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_hematocrit
IGNORED:  Samples_Term Source REF.16
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Term Accession Number.22
IGNORED:  Samples_Term Accession Number.27
IGNORED:  Samples_duration illness prior to hospital admission/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 47%|████▋     | 792/1674 [1:43:52<1:45:08,  7.15s/it]
IGNORED:  Samples_temperature
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Term Source REF.15
Number of rows removed due to not enough metadata: 0
Returning 244 rows!
Added 244 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS318
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_28.mzML
FILES
Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_29.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_30.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_31.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_32.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_33.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_35.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_36.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_37.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_38.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_39.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_40.mzML
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Method 2 13405
QXA03POSLAT20150508_STJU0115VW_BACTERIA_BACTERIAL_42.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_03.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_04.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_05.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_06.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_08.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_09.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_10.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_11.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_12.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_13.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_15.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_16.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_17.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_18.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_19.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_21.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_22.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_23.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_24.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_25.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL1_26.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_03.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_04.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_05.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_06.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_08.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_09.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_10.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_11.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_12.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_13.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_15.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_16.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_17.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_18.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_19.mzML
FILES
Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_21.mzML
FILES
Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_22.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_23.mzML
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Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_24.mzML
FILES
Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_25.mzML
FILES
Method 2 14675
QXA10POSLAT20160316_STJU0116VW_BACTERIA_BACTERIAL2_26.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_03.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_04.mzML
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Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_05.mzML
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Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_06.mzML
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Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_07.mzML
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Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_08.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_09.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_10.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_11.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_12.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_14.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_15.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_16.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_17.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_18.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_19.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_20.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_21.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_22.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_23.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_25.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_26.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_27.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_28.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_29.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_30.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_31.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_32.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_33.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_35.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_36.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_37.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_38.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_39.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_40.mzML
FILES
Method 3 13405
QXA01NEG20150508_STJU0115VW_BACTERIA_BACTERIAL_42.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_03.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_04.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_05.mzML
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Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_06.mzML
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Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_08.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_09.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_10.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_11.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_12.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_13.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_15.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_16.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_17.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_18.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_19.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_21.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_22.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_23.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_24.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_25.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL1_26.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_03.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_04.mzML
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Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_05.mzML
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Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_06.mzML
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Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_08.mzML
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Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_09.mzML
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Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_10.mzML
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Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_11.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_12.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_13.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_15.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_16.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_17.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_18.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_19.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_21.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_22.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_23.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_24.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_25.mzML
FILES
Method 3 14675
QXA09NEG20160316_STJU0116VW_BACTERIA_BACTERIAL2_26.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_03.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_04.mzML
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Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_05.mzML
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Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_06.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_07.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_08.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_09.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_10.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_11.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_12.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_14.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_15.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_16.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_17.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_18.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_19.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_20.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_21.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_22.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_23.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_25.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_26.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_27.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_28.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_29.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_30.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_31.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_32.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_33.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_35.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_36.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_37.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_38.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_39.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_40.mzML
FILES
Method 4 13405
QXA02POL20150508_STJU0115VW_BACTERIA_BACTERIAL_42.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_03.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_04.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_05.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_06.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_08.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_09.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_10.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_11.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_12.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_13.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_15.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_16.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_17.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_18.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_19.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_21.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_22.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_23.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_24.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_25.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL1_26.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_03.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_04.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_05.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_06.mzML
FILES
Method 4 14675
QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_08.mzML
FILES
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QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_09.mzML
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FILES
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QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_12.mzML
FILES
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QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_13.mzML
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FILES
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FILES
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QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_17.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 47%|████▋     | 793/1674 [1:44:05<2:12:03,  8.99s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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FILES
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QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_18.mzML
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QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_19.mzML
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QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_23.mzML
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QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_24.mzML
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QXA08POL20160316_STJU0116VW_BACTERIA_BACTERIAL2_26.mzML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Accession Number.15
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 312 rows!
Added 312 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS32
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 4000: missing value
FILES
100609fluexpSET1.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Dose
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS175
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Shimadzu GCMS-QP2010 Ultra: missing value
  Waters Synapt G1 HDMS System: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 47%|████▋     | 795/1674 [1:44:15<1:42:16,  6.98s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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MEJA100uM06.CDF
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MEJA200uM03.CDF
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MEJA200uM04.CDF
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MEJA200uM05.CDF
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MEJA200uM06.CDF
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MEJA400uM01.CDF
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MEJA400uM02.CDF
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MEJA400uM03.CDF
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MEJA400uM04.CDF
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MEJA400uM05.CDF
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MEJA400uM06.CDF
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MEJACONTL01.CDF
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MEJACONTL02.CDF
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MEJACONTL06.CDF
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MeJA100uMA1a.CDF
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MeJA100uMA1b.CDF
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MeJA100uMA2b.CDF
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MeJA100uMA3b.CDF
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MeJA100uMB1a.CDF
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MeJA100uMB1b.CDF
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MeJA100uMB2a.CDF
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MeJA100uMB2b.CDF
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MeJA100uMB3a.CDF
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MeJA100uMB3b.CDF
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MeJA100uMC1a.CDF
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MeJA100uMC1b.CDF
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MeJA100uMC2a.CDF
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MeJA100uMC2b.CDF
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MeJA100uMC3a.CDF
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MeJA100uMC3b.CDF
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MeJA200uMA1a.CDF
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MeJAControlA1a.CDF
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MeJAControlA3b.CDF
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MeJAControlB1a.CDF
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MeJAControlB1b.CDF
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MeJAControlB2a.CDF
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MeJAControlB2b.CDF
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MeJAControlB3a.CDF
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MeJAControlB3b.CDF
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MeJAControlC1a.CDF
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MeJAControlC1b.CDF
FILES
MeJAControlC2a.CDF
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MeJAControlC2b.CDF
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MeJAControlC3a.CDF
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MeJAControlC3b.CDF
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS33
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 4000: missing value
FILES
022310fluexpSET1.wiff
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
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IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Dose
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS620
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS180
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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QXA13POL20151105_MICH0215VW_INSECT_WHOLE_HEAD2_27.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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QXA13POL20151105_MICH0215VW_INSECT_WHOLE_HEAD2_30.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Diet
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Term Accession Number.21
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Source REF.21
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Samples_Fasting status
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 236 rows!
Added 236 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS768
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Shimadzu GCMS-QP2020: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Light exposure
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Light
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3476
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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Method 4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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21147 SSID Data MZML
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21147 SSID Data MZML
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QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_26.mzML
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QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_27.mzML
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21147 SSID Data MZML
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QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_29.mzML
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21147 SSID Data MZML
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QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_30.mzML
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21147 SSID Data MZML
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QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_31.mzML
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21147 SSID Data MZML
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QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_32.mzML
FILES
21147 SSID Data MZML
Method 4
QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_33.mzML
FILES
21147 SSID Data MZML
Method 4
QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_34.mzML
FILES
21147 SSID Data MZML
Method 4
QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_35.mzML
FILES
21147 SSID Data MZML
Method 4
QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_36.mzML
FILES
21147 SSID Data MZML
Method 4
QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_37.mzML
FILES
21147 SSID Data MZML
Method 4
QXA19POL20191202_UNBC0219MD_HUMAN_FECAL3_38.mzML
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
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Number of rows removed due to not enough metadata: 0
Returning 404 rows!
Added 404 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS35
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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IonizationSourceAndPolarity:
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FILES
SBEP_STM_LB_1_1.CDF
FILES
SBEP_STM_LB_1_2.CDF
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SBEP_STM_LB_2_1.CDF
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SBEP_STM_LB_2_2.CDF
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SBEP_STM_LB_3_1.CDF
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SBEP_STM_LB_3_2.CDF
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SBEP_STM_LPM20_1_1.CDF
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SBEP_STM_LPM20_2_1.CDF
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SBEP_STM_LPM20_2_2.CDF
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SBEP_STM_LPM20_3_1.CDF
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SBEP_STM_LPM20_3_2.CDF
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SBEP_STM_LPM4_1_1.CDF
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SBEP_STM_LPM4_1_2.CDF
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SBEP_STM_LPM4_2_1.CDF
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SBEP_STM_LPM4_2_2.CDF
FILES
SBEP_STM_LPM4_3_1.CDF
FILES
SBEP_STM_LPM4_3_2.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 48%|████▊     | 801/1674 [1:44:59<1:57:52,  8.10s/it]
 48%|████▊     | 802/1674 [1:45:01<1:31:48,  6.32s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 48%|████▊     | 803/1674 [1:45:10<1:41:26,  6.99s/it]
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS237
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS661
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo TQ: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
S1.raw
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Accession Number.7
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 8
Returning 126 rows!
Added 126 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1873
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
  Agilent 7000C Triple Quadrupole: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
9-tricosene HESI-Orbitrap direct infusion.mzML
FILES
ASTM gas oil GC-MS.mzML
FILES
Control male fly GC-MS.mzML
FILES
Control male fly LC-MS pos polarity replicate 1.mzML
FILES
Control male fly LC-MS pos polarity replicate 2.mzML
FILES
Control male fly LC-MS pos polarity replicate 3.mzML
FILES
Control male fly LC-MS2 neg polarity replicate 1.mzML
FILES
Control male fly LC-MS2 neg polarity replicate 2.mzML
FILES
Control male fly LC-MS2 neg polarity replicate 3.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 48%|████▊     | 804/1674 [1:45:20<1:55:13,  7.95s/it]
 48%|████▊     | 805/1674 [1:45:22<1:31:24,  6.31s/it]
FILES
Control male fly LC-MS2 pos polarity replicate 1.mzML
FILES
Control male fly LC-MS2 pos polarity replicate 2.mzML
FILES
Control male fly LC-MS2 pos polarity replicate 3.mzML
FILES
Golden gage plum GC-MS replicate 1.mzML
FILES
Golden gage plum GC-MS replicate 2.mzML
FILES
Golden gage plum GC-MS replicate 3.mzML
FILES
Gooseberry GC-MS replicate 1.mzML
FILES
Gooseberry GC-MS replicate 2.mzML
FILES
Gooseberry GC-MS replicate 3.mzML
FILES
Gooseberry leaf GC-MS replicate 1.mzML
FILES
Gooseberry leaf GC-MS replicate 2.mzML
FILES
Gooseberry leaf GC-MS replicate 3.mzML
FILES
Hydrocarbon Standards GC-MS.mzML
FILES
Pine needle GC-MS replicate 1.mzML
FILES
Pine needle GC-MS replicate 2.mzML
FILES
Pine needle GC-MS replicate 3.mzML
FILES
Tomato leaf GC-MS replicate 1.mzML
FILES
Tomato leaf GC-MS replicate 2.mzML
FILES
Tomato leaf GC-MS replicate 3.mzML
FILES
Tricosene GC-MS:MS.mzML
FILES
Victoria plum GC-MS replicate 1.mzML
FILES
Victoria plum GC-MS replicate 2.mzML
FILES
Victoria plum GC-MS replicate 3.mzML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Organism
IGNORED:  Assay_Linescan sequence
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
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IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Resolving power m/z
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IGNORED:  Assay_Unit.3
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
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IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Resolving power
IGNORED:  Assay_Unit.5
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Scan type
IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Low-res image
IGNORED:  Assay_Matrix application
IGNORED:  keep
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IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Max count of pixel x
IGNORED:  Assay_Scan pattern
IGNORED:  Samples_Cultivar
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Sample preservation
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Instrument software version
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Section thickness
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Matrix
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Samples_Argon cluster size
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Pixel size y
IGNORED:  Assay_Solvent
IGNORED:  Assay_Spectrum representation
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_DI Instrument
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Spatial resolution
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 3
Returning 29 rows!
Added 29 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS364
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS822
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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KIT3-0-5504_1020806801_35_0_1_1_00_1020806581.wiff/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Plate No
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Well Position
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 32
Returning 339 rows!
Added 339 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS19
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Q-Tof Premier: missing value
IonizationSourceAndPolarity:
  electrospray ionization: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.5/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 48%|████▊     | 807/1674 [1:45:49<2:18:28,  9.58s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 48%|████▊     | 808/1674 [1:45:54<1:57:52,  8.17s/it]
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 360 rows!
Added 360 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3672
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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FILES
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mzML
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mzML
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mzML
High light recovery_3.mzML
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DERIVED_FILES
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FILES
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mzML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Sample type
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3676
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker impact II UHR-QTOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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WT5_BA6_01_176.cdf
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 48%|████▊     | 809/1674 [1:45:58<1:41:14,  7.02s/it]
 48%|████▊     | 810/1674 [1:46:01<1:23:22,  5.79s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 48%|████▊     | 811/1674 [1:46:05<1:17:35,  5.39s/it]
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6739
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6831
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
AP1.raw
FILES
RAW_FILES
AP2.raw
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Ctrl3.raw
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Ctrl6.raw
FILES
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RAW_FILES
QC-1.raw
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RAW_FILES
QC-2.raw
FILES
RAW_FILES
QC-3.raw
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6844
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX Triple Quad 5500+ QTRAP Ready: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FIA_WIFF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▊     | 812/1674 [1:46:15<1:34:13,  6.56s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_FIA Instrument
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
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IGNORED:  base
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 14
Returning 120 rows!
Added 120 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS39
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker Esquire 6000: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
AM063A.cdf
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Samples_Year of Harvesting
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Vineyard
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS787
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS794
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▊     | 816/1674 [1:46:27<59:56,  4.19s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▉     | 817/1674 [1:46:32<1:01:54,  4.33s/it]
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q II: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
mzML
MSpos-Ex1-Col0-48h-Ag-1_1-A__1_01_9818.mzML
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mzML
MSpos-Ex2-cyp79-48h-Ag-1_1-B__3_01_9828.mzML
FILES
mzML
MSpos-Ex2-cyp79-48h-Ag-2_1-B__4_01_9830.mzML
FILES
mzML
MSpos-Ex2-cyp79-48h-Ag-3_1-B__3_01_9832.mzML
FILES
mzML
MSpos-Ex2-cyp79-48h-Ag-4_1-B__4_01_9834.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Assay_Derived Spectral Data File.1
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_replicate
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_genotype
IGNORED:  Assay_Column model
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS704
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 3200: missing value
FILES
2018-04-19.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_DI Instrument
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS401
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ChromatographyAndPhase:
   (polar-C18): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Albendazole_B3_Rep1.mzML
FILES
Albendazole_B3_Rep2.mzML
FILES
Albendazole_B3_Rep3.mzML
FILES
Ancitabine_B4_Rep1.mzML
FILES
Ancitabine_B4_Rep2.mzML
FILES
Ancitabine_B4_Rep3.mzML
FILES
Aspirin_B2_Rep1.mzML
FILES
Aspirin_B2_Rep2.mzML
FILES
Aspirin_B2_Rep3.mzML
FILES
Atrazine_B4_Rep1.mzML
FILES
Atrazine_B4_Rep2.mzML
FILES
Atrazine_B4_Rep3.mzML
FILES
BLANK_B1_Rep1.mzML
FILES
BLANK_B1_Rep1_151215123301.mzML
FILES
BLANK_B1_Rep1_2.mzML
FILES
BLANK_B1_Rep2.mzML
FILES
BLANK_B1_Rep2_2.mzML
FILES
BLANK_B1_Rep3.mzML
FILES
BLANK_B1_Rep3_2.mzML
FILES
BLANK_B2_Rep1.mzML
FILES
BLANK_B2_Rep1_2.mzML
FILES
BLANK_B2_Rep2.mzML
FILES
BLANK_B2_Rep2_2.mzML
FILES
BLANK_B2_Rep3.mzML
FILES
BLANK_B2_Rep3_2.mzML
FILES
BLANK_B3_Rep1.mzML
FILES
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FILES
BLANK_B3_Rep2.mzML
FILES
BLANK_B3_Rep2_2.mzML
FILES
BLANK_B3_Rep3.mzML
FILES
BLANK_B3_Rep3_2.mzML
FILES
BLANK_B4_Rep1.mzML
FILES
BLANK_B4_Rep1_2.mzML
FILES
BLANK_B4_Rep2.mzML
FILES
BLANK_B4_Rep2_2.mzML
FILES
BLANK_B4_Rep3.mzML
FILES
BLANK_B4_Rep3_2.mzML
FILES
BetaEstradiol_B1_Rep1.mzML
FILES
BetaEstradiol_B1_Rep2.mzML
FILES
BetaEstradiol_B1_Rep3.mzML
FILES
BisphenolA_B3_Rep1.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▉     | 818/1674 [1:46:40<1:16:57,  5.39s/it]
FILES
BisphenolA_B3_Rep2.mzML
FILES
BisphenolA_B3_Rep3.mzML
FILES
Bortezomib_B1_Rep1.mzML
FILES
Bortezomib_B1_Rep2.mzML
FILES
Bortezomib_B1_Rep3.mzML
FILES
Chloroquine_B3_Rep1.mzML
FILES
Chloroquine_B3_Rep2.mzML
FILES
Chloroquine_B3_Rep3.mzML
FILES
Control_B1_Rep1.mzML
FILES
Control_B1_Rep1_2.mzML
FILES
Control_B1_Rep2.mzML
FILES
Control_B1_Rep2_2.mzML
FILES
Control_B1_Rep3.mzML
FILES
Control_B1_Rep3_2.mzML
FILES
Control_B2_Rep1_2.mzML
FILES
Control_B2_Rep2.mzML
FILES
Control_B2_Rep2_2.mzML
FILES
Control_B2_Rep3.mzML
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Control_B2_Rep3_2.mzML
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Control_B3_Rep1.mzML
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Control_B3_Rep1_2.mzML
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Control_B3_Rep2.mzML
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Control_B3_Rep2_2.mzML
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Control_B3_Rep3.mzML
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Control_B3_Rep3_2.mzML
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Control_B4_Rep1.mzML
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Control_B4_Rep1_2.mzML
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Control_B4_Rep2.mzML
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Control_B4_Rep2_2.mzML
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Control_B4_Rep3.mzML
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Control_B4_Rep3_2.mzML
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Daidzein_B4_Rep1.mzML
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Daidzein_B4_Rep2.mzML
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Daidzein_B4_Rep3.mzML
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Dexamethasone_B3_Rep1.mzML
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Dexamethasone_B3_Rep2.mzML
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Dexamethasone_B3_Rep3.mzML
FILES
Diethylstilbestrol_B2_Rep1.mzML
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Diethylstilbestrol_B2_Rep2.mzML
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Diethylstilbestrol_B2_Rep3.mzML
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Dimephentioate_B3_Rep1.mzML
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Dimephentioate_B3_Rep2.mzML
FILES
Dimephentioate_B3_Rep3.mzML
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Diuron1.3_B1_Rep1.mzML
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Diuron1.3_B1_Rep2.mzML
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Diuron1.3_B1_Rep3.mzML
FILES
Erlotinib_B2_Rep1.mzML
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Erlotinib_B2_Rep2.mzML
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Erlotinib_B2_Rep3.mzML
FILES
Gefitinib_B3_Rep1.mzML
FILES
Gefitinib_B3_Rep2.mzML
FILES
Gefitinib_B3_Rep3.mzML
FILES
Genistein_B3_Rep1.mzML
FILES
Genistein_B3_Rep2.mzML
FILES
Genistein_B3_Rep3.mzML
FILES
Glyphosate_B2_Rep1.mzML
FILES
Glyphosate_B2_Rep2.mzML
FILES
Glyphosate_B2_Rep3.mzML
FILES
Hydrocortisone_B1_Rep1.mzML
FILES
Hydrocortisone_B1_Rep2.mzML
FILES
Hydrocortisone_B1_Rep3.mzML
FILES
Ibuprofen_B3_Rep1.mzML
FILES
Ibuprofen_B3_Rep2.mzML
FILES
Ibuprofen_B3_Rep3.mzML
FILES
Lapatinib_B4_Rep1.mzML
FILES
Lapatinib_B4_Rep2.mzML
FILES
Lapatinib_B4_Rep3.mzML
FILES
Mebendazole_B1_Rep1.mzML
FILES
Mebendazole_B1_Rep2.mzML
FILES
Mebendazole_B1_Rep3.mzML
FILES
Mebendazole_B2_Rep1.mzML
FILES
Mebendazole_B2_Rep1_2.mzML
FILES
Mebendazole_B2_Rep2.mzML
FILES
Mebendazole_B2_Rep2_2.mzML
FILES
Mebendazole_B2_Rep3.mzML
FILES
Mebendazole_B2_Rep3_2.mzML
FILES
Mebendazole_B3_Rep1.mzML
FILES
Mebendazole_B3_Rep2.mzML
FILES
Mebendazole_B3_Rep3.mzML
FILES
Mebendazole_B4_Rep1.mzML
FILES
Mebendazole_B4_Rep2.mzML
FILES
Mebendazole_B4_Rep3.mzML
FILES
NVP.BEZ235_B3_Rep1.mzML
FILES
NVP.BEZ235_B3_Rep2.mzML
FILES
NVP.BEZ235_B3_Rep3.mzML
FILES
Octylmethoxycinnamate_B4_Rep1.mzML
FILES
Octylmethoxycinnamate_B4_Rep2.mzML
FILES
Octylmethoxycinnamate_B4_Rep3.mzML
FILES
Phthalate_B4_Rep1.mzML
FILES
Phthalate_B4_Rep2.mzML
FILES
Phthalate_B4_Rep3.mzML
FILES
Prednisolone_B2_Rep1.mzML
FILES
Prednisolone_B2_Rep2.mzML
FILES
Prednisolone_B2_Rep3.mzML
FILES
Quercetin_B1_Rep1.mzML
FILES
Quercetin_B1_Rep2.mzML
FILES
Quercetin_B1_Rep3.mzML
FILES
Rapamycin_B1_Rep1.mzML
FILES
Rapamycin_B1_Rep2.mzML
FILES
Rapamycin_B1_Rep3.mzML
FILES
Tamoxifen_B4_Rep1.mzML
FILES
Tamoxifen_B4_Rep2.mzML
FILES
Tamoxifen_B4_Rep3.mzML
FILES
Thiram_B4_Rep1.mzML
FILES
Thiram_B4_Rep2.mzML
FILES
Thiram_B4_Rep3.mzML
FILES
TrichostatinA_B2_Rep1.mzML
FILES
TrichostatinA_B2_Rep2.mzML
FILES
TrichostatinA_B2_Rep3.mzML
FILES
Vinblastine_B1_Rep1.mzML
FILES
Vinblastine_B1_Rep2.mzML
FILES
Vinblastine_B1_Rep3.mzML
FILES
Vincristine_B2_Rep1.mzML
FILES
Vincristine_B2_Rep2.mzML
FILES
Vincristine_B2_Rep3.mzML
FILES
Wortmannin_B4_Rep1.mzML
FILES
Wortmannin_B4_Rep2.mzML
FILES
Wortmannin_B4_Rep3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_replicate
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_batch
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 159 rows!
Added 159 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS710
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QE1_REP_34_QC1_02.raw
FILES
QE1_REP_34_QC1_14.raw
FILES
QE1_REP_34_QC1_26.raw
FILES
QE1_REP_34_QC1_28.raw
FILES
QE1_REP_34_QC1_32.raw
FILES
QE1_REP_34_QC1_37.raw
FILES
QE1_REP_34_QC1_53.raw
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QE1_REP_34_QC2_12.raw
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QE1_REP_34_QC2_24.raw
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QE1_REP_34_QC2_27.raw
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QE1_REP_34_QC2_29.raw
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QE1_REP_34_QC2_33.raw
FILES
QE1_REP_34_QC2_47.raw
FILES
QE1_REP_34_QC2_48.raw
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QE1_REP_34_QC2_54.raw
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QE1_REP_34_QC3_01.raw
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QE1_REP_34_QC3_30.raw
FILES
QE1_REP_34_QC3_34.raw
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QE1_REP_34_QC3_49.raw
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QE1_REP_34_QC3_52.raw
FILES
QE1_REP_34_QC3_55.raw
FILES
QE1_REP_34_blank_01.raw
FILES
QE1_REP_34_blank_01c.raw
FILES
QE1_REP_34_blank_13.raw
FILES
QE1_REP_34_blank_25.raw
FILES
QE1_REP_34_blank_31.raw
FILES
QE1_REP_34_blank_50.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Sample
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▉     | 819/1674 [1:46:46<1:21:54,  5.75s/it]
 49%|████▉     | 820/1674 [1:46:48<1:06:28,  4.67s/it]
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 28 rows!
Added 28 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS422
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4231
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  extension
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IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▉     | 821/1674 [1:46:54<1:11:48,  5.05s/it]
 49%|████▉     | 822/1674 [1:46:58<1:06:32,  4.69s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▉     | 823/1674 [1:47:05<1:14:36,  5.26s/it]
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 80 rows!
Added 80 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4249
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7127
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  LECO Pegasus 4D: missing value
  Thermo Scientific Orbitrap Elite: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 28 rows!
Added 28 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS45
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IonizationSourceAndPolarity:
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ChromatographyAndPhase:
  : missing value
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FILES
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IGNORED:  Assay_Label
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IGNORED:  Samples_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▉     | 824/1674 [1:47:11<1:20:09,  5.66s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▉     | 825/1674 [1:47:19<1:28:03,  6.22s/it]
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 1
Returning 53 rows!
Added 53 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4556
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NIG1A_Urine.mzML
FILES
DERIVED_FILES
NIG1B_Urine.mzML
FILES
DERIVED_FILES
NIG1C_Urine.mzML
FILES
DERIVED_FILES
NIG1D_Urine.mzML
FILES
DERIVED_FILES
NIG1E_Urine.mzML
FILES
DERIVED_FILES
NIG1F_Urine.mzML
FILES
DERIVED_FILES
NIG1G_Urine.mzML
FILES
DERIVED_FILES
NIG1H_Urine.mzML
FILES
DERIVED_FILES
NIG1I_Urine.mzML
FILES
DERIVED_FILES
NIG1J_Urine.mzML
FILES
DERIVED_FILES
NIG1L_Urine.mzML
FILES
DERIVED_FILES
NIG1P_Urine.mzML
FILES
DERIVED_FILES
NIG1Q_Urine.mzML
FILES
DERIVED_FILES
NIG1R_Urine.mzML
FILES
DERIVED_FILES
NIG1S_Urine.mzML
FILES
DERIVED_FILES
NIG1T_Urine.mzML
FILES
DERIVED_FILES
NIG1U_Urine.mzML
FILES
DERIVED_FILES
NIG1V_Urine.mzML
FILES
DERIVED_FILES
NIG1W_Urine.mzML
FILES
DERIVED_FILES
NIG1X_Urine.mzML
FILES
DERIVED_FILES
NIG1Y_Urine.mzML
FILES
DERIVED_FILES
NIG1Z_Urine.mzML
FILES
DERIVED_FILES
NIG2A_Urine.mzML
FILES
DERIVED_FILES
NIG2B_Urine.mzML
FILES
DERIVED_FILES
NIG2C_Urine.mzML
FILES
DERIVED_FILES
NIG2D_Urine.mzML
FILES
DERIVED_FILES
NIG2E_Urine.mzML
FILES
DERIVED_FILES
NIG2F_Urine.mzML
FILES
DERIVED_FILES
NIG2G_Urine.mzML
FILES
DERIVED_FILES
NIG2H_Urine.mzML
FILES
DERIVED_FILES
NIG2I_Urine.mzML
FILES
DERIVED_FILES
NIG2J_Urine.mzML
FILES
DERIVED_FILES
NIG2L_Urine.mzML
FILES
DERIVED_FILES
NIG2P_Urine.mzML
FILES
DERIVED_FILES
NIG2Q_Urine.mzML
FILES
DERIVED_FILES
NIG2R_Urine.mzML
FILES
DERIVED_FILES
NIG2S_Urine.mzML
FILES
DERIVED_FILES
NIG2T_Urine.mzML
FILES
DERIVED_FILES
NIG2V_Urine.mzML
FILES
DERIVED_FILES
NIG3A_Urine.mzML
FILES
DERIVED_FILES
NIG3B_Urine.mzML
FILES
DERIVED_FILES
NIG3C_Urine.mzML
FILES
DERIVED_FILES
NIG3E_Urine.mzML
FILES
DERIVED_FILES
NIG3F_Urine.mzML
FILES
DERIVED_FILES
NIG3G_Urine.mzML
FILES
DERIVED_FILES
NIG3H_Urine.mzML
FILES
DERIVED_FILES
NIG3I_Urine.mzML
FILES
DERIVED_FILES
NIG3J_Urine.mzML
FILES
DERIVED_FILES
NIG3L_Urine.mzML
FILES
DERIVED_FILES
NIG3N_Urine.mzML
FILES
DERIVED_FILES
NIG3P_Urine.mzML
FILES
DERIVED_FILES
NIG3Q_Urine.mzML
FILES
DERIVED_FILES
NIG3R_Urine.mzML
FILES
DERIVED_FILES
NIG3S_Urine.mzML
FILES
DERIVED_FILES
NIG3T_Urine.mzML
FILES
DERIVED_FILES
NIG3U_Urine.mzML
FILES
DERIVED_FILES
NIG3V_Urine.mzML
FILES
DERIVED_FILES
NIG3Z_Urine.mzML
FILES
DERIVED_FILES
NIG4A_Urine.mzML
FILES
DERIVED_FILES
NIG4B_Urine.mzML
FILES
DERIVED_FILES
NIG4D_Urine.mzML
FILES
DERIVED_FILES
NIG4E_Urine.mzML
FILES
DERIVED_FILES
NIG4F_Urine.mzML
FILES
DERIVED_FILES
NIG4G_Urine.mzML
FILES
DERIVED_FILES
NIG4I_Urine.mzML
FILES
DERIVED_FILES
NIG4J_Urine.mzML
FILES
DERIVED_FILES
NIG4P_Urine.mzML
FILES
DERIVED_FILES
NIG4Q_Urine.mzML
FILES
DERIVED_FILES
NIG4R_Urine.mzML
FILES
DERIVED_FILES
NIG4S_Urine.mzML
FILES
DERIVED_FILES
NIG4T_Urine.mzML
FILES
DERIVED_FILES
NIG4U_Urine.mzML
FILES
DERIVED_FILES
NIG4V_Urine.mzML
FILES
DERIVED_FILES
PoPhe_Urine_12hU65M1.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU45M1.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU45M2.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU45W1.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU45W2.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU55M1.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU55M2.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU55W1.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU55W2.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU65M2.mzML
FILES
DERIVED_FILES
PoPhe_Urine_24hU65W1.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Cohort
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_Column type 1
IGNORED:  Assay_Column type 2
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Column model 2
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Column model 1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 84 rows!
Added 84 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4717
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6220 Accurate-Mass TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
6220_0531.d
FILES
RAW_FILES
NEG
6220_0532.d
FILES
RAW_FILES
NEG
6220_0533.d
FILES
RAW_FILES
NEG
6220_0534.d
FILES
RAW_FILES
NEG
6220_0535.d
FILES
RAW_FILES
NEG
6220_0537.d
FILES
RAW_FILES
POS
6220_0547.d
FILES
RAW_FILES
POS
6220_0548.d
FILES
RAW_FILES
POS
6220_0549.d
FILES
RAW_FILES
POS
6220_0550.d
FILES
RAW_FILES
POS
6220_0551.d
FILES
RAW_FILES
POS
6220_0552.d
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 49%|████▉     | 826/1674 [1:47:23<1:20:36,  5.70s/it]
 49%|████▉     | 827/1674 [1:47:25<1:03:43,  4.51s/it]
 49%|████▉     | 828/1674 [1:47:27<50:47,  3.60s/it]  
 50%|████▉     | 829/1674 [1:47:33<1:00:33,  4.30s/it]
 50%|████▉     | 830/1674 [1:47:36<54:59,  3.91s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 50%|████▉     | 831/1674 [1:47:42<1:04:46,  4.61s/it]
 50%|████▉     | 832/1674 [1:47:43<51:51,  3.70s/it]  IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Generation
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4766
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS49
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS72
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS802
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS825
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion Lumos Tribrid: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
MEC007_LIPID01_100520_20180418_PC.raw
FILES
MEC007_LIPID01_100520_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100521_20180418_PC.raw
FILES
MEC007_LIPID01_100521_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100522_20180418_PC.raw
FILES
MEC007_LIPID01_100522_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100526_20180418_PC.raw
FILES
MEC007_LIPID01_100526_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100527_20180418_PC.raw
FILES
MEC007_LIPID01_100527_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100528_20180418_PC.raw
FILES
MEC007_LIPID01_100528_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100529_20180418_PC.raw
FILES
MEC007_LIPID01_100529_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100530_20180418_PC.raw
FILES
MEC007_LIPID01_100530_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100531_20180418_PC.raw
FILES
MEC007_LIPID01_100531_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100532_20180418_PC.raw
FILES
MEC007_LIPID01_100532_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100533_20180418_PC.raw
FILES
MEC007_LIPID01_100533_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100534_20180418_PC.raw
FILES
MEC007_LIPID01_100534_2_20180822_Cer_CerPE.raw
FILES
MEC007_LIPID01_100535_20180418_PC.raw
FILES
MEC007_LIPID01_100535_20181015_Cer_CerPE.raw
FILES
MEC007_LIPID01_100536_20180419_PC.raw
FILES
MEC007_LIPID01_100536_20181015_Cer_CerPE.raw
FILES
MEC007_LIPID01_100537_20180419_PC.raw
FILES
MEC007_LIPID01_100537_20181015_Cer_CerPE.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_genotype
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS807
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS826
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977A MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
FILES
SP_20181012_003.mzXML
FILES
SP_20181012_004.mzXML
FILES
SP_20181012_005.mzXML
FILES
SP_20181012_006.mzXML
FILES
SP_20181012_008.mzXML
FILES
SP_20181012_015.mzXML
FILES
SP_20181012_016.mzXML
FILES
SP_20181012_018.mzXML
FILES
SP_20181012_019.mzXML
FILES
SP_20181012_020.mzXML
FILES
SP_20181012_021.mzXML
FILES
SP_20181012_023.mzXML
FILES
SP_20181012_024.mzXML
FILES
SP_20181012_025.mzXML
FILES
SP_20181012_026.mzXML
FILES
SP_20181012_028.mzXML
FILES
SP_20181012_029.mzXML
FILES
SP_20181012_030.mzXML
FILES
SP_20181012_031.mzXML
FILES
SP_20181012_033.mzXML
FILES
SP_20181012_034.mzXML
FILES
SP_20181012_035.mzXML
FILES
SP_20181012_036.mzXML
FILES
SP_20181012_038.mzXML
FILES
SP_20181012_039.mzXML
FILES
SP_20181012_040.mzXML
FILES
SP_20181012_041.mzXML
FILES
SP_20181012_043.mzXML
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SP_20181012_045.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Samples_Step modification/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 50%|████▉     | 833/1674 [1:47:50<1:03:37,  4.54s/it]
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5208
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6546 Q-TOF: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Scan m/z range/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 50%|████▉     | 834/1674 [1:47:57<1:14:44,  5.34s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 50%|████▉     | 835/1674 [1:48:02<1:14:03,  5.30s/it]
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 100 rows!
Added 100 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5229
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Vantage: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  filepath
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS225
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Vantage: missing value
  Waters Xevo TQ-S: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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SYL-TSQ-13-06-18_Urine68cbz.mzXML
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8272
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See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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lipidomic
Ace_lipid_A-T10-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T10-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T18-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_A-T24-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T0-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T10-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T18-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_D-T24-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s1_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s1_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s1_blank2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s1_blank2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s1_ext_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s1_ext_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s1_media_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s1_media_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s2_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s2_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s2_blank2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s2_blank2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s2_ext_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s2_ext_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s2_media_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s2_media_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s3_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s3_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s3_blank2+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s3_blank2-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s3_ext_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s3_ext_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s3_media_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Ace_lipid_s3_media_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T0-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T10-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T18-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_A-T24-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T0-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T10-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T18-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-1_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-1_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-1_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-1_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-1_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-1_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-2_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-2_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-2_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-2_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-2_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-2_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-3_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-3_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-3_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-3_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-3_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-3_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-4_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-4_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-4_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-4_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-4_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-4_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-5_1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-5_1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-5_2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-5_2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-5_3+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_D-T24-5_3-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_blank2+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_blank2-.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_ext_blank1+.mzML
FILES
DERIVED_FILES
lipidomic
Glu_lipid_ext_blank1-.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T0-1+.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T0-1-.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T0-2+.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T0-2-.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T0-3+.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T0-3-.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T21-1+.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T21-1-.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T21-2+.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T21-2-.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T21-3+.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T21-3-.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T4-1+.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T4-1-.mzML
FILES
DERIVED_FILES
lipidomic
SMM_lipid_A-T4-2+.mzML
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Glu_metab_D-T0-4_3.mzML
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metabolomic
Glu_metab_D-T0-5_1.mzML
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Glu_metab_D-T10-1_1.mzML
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Glu_metab_D-T10-2_3.mzML
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metabolomic
Glu_metab_D-T10-3_3.mzML
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Glu_metab_D-T10-4_1.mzML
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metabolomic
Glu_metab_D-T10-4_2.mzML
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metabolomic
Glu_metab_D-T10-4_3.mzML
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metabolomic
Glu_metab_D-T10-5_1.mzML
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Glu_metab_D-T10-5_2.mzML
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Glu_metab_D-T10-5_3.mzML
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Glu_metab_D-T18-1_1.mzML
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Glu_metab_D-T18-1_2.mzML
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Glu_metab_D-T18-1_3.mzML
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Glu_metab_D-T18-2_2.mzML
FILES
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metabolomic
Glu_metab_D-T18-2_3.mzML
FILES
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metabolomic
Glu_metab_D-T18-3_1.mzML
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metabolomic
Glu_metab_D-T18-3_2.mzML
FILES
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metabolomic
Glu_metab_D-T18-3_3.mzML
FILES
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metabolomic
Glu_metab_D-T18-4_1.mzML
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metabolomic
Glu_metab_D-T18-4_2.mzML
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metabolomic
Glu_metab_D-T18-4_3.mzML
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metabolomic
Glu_metab_D-T18-5_1.mzML
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metabolomic
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metabolomic
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Glu_metab_D-T24-1_1.mzML
FILES
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FILES
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FILES
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FILES
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Glu_metab_D-T24-3_1.mzML
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Glu_metab_D-T24-3_2.mzML
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Glu_metab_D-T24-3_3.mzML
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Glu_metab_D-T24-4_1.mzML
FILES
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FILES
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Glu_metab_D-T24-4_3.mzML
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Glu_metab_D-T24-5_1.mzML
FILES
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Glu_metab_D-T24-5_2.mzML
FILES
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Glu_metab_D-T24-5_3.mzML
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Glu_metab_blank1_1.mzML
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Glu_metab_blank1_3.mzML
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Glu_metab_blank1_4.mzML
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SMM_metab_A-T0-1.mzML
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SMM_metab_A-T21-1.mzML
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SMM_metab_A-T21-3.mzML
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SMM_metab_A-T4-1.mzML
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SMM_metab_A-T4-2.mzML
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SMM_metab_A-T4-3.mzML
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SMM_metab_A-T8-1.mzML
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SMM_metab_A-T8-2.mzML
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SMM_metab_A-T8-3.mzML
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SMM_metab_D-T0-1.mzML
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SMM_metab_D-T21-1.mzML
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SMM_metab_D-T21-3.mzML
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SMM_metab_D-T4-1.mzML
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metabolomic
SMM_metab_D-T4-2.mzML
FILES
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metabolomic
SMM_metab_D-T4-3.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 50%|█████     | 839/1674 [1:48:42<2:27:39, 10.61s/it]
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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SMM_metab_D-T8-3.mzML
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SMM_metab_blank1.mzML
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SMM_metab_blank4.mzML
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SMM_metab_ext1.mzML
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SMM_metab_ext3.mzML
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SMM_metab_ext4.mzML
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 850 rows!
Added 850 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2276
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2277
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS23
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SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
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FILES
SBEP_Metab_Control1_A.CDF
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SBEP_Metab_LPSactivated3_A.CDF
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS54
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS722
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SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
1.mzXML
FILES
10.mzXML
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11.mzXML
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12.mzXML
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13.mzXML
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14.mzXML
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15.mzXML
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4.mzXML
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49.mzXML
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5.mzXML
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50.mzXML
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IGNORED:  Assay_Term Source REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Accession Number.3
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Number of rows removed due to not enough metadata: 0
Returning 59 rows!
Added 59 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7248
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
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DepthorAltitudeMeters: ADDED!
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FILES
DERIVED_FILES
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1-BM-glu-blank1_neg.mzML
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NEG
10-BM-glu-spentLr-iso3_neg.mzML
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DERIVED_FILES
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11-BM-glu-Lr1_neg.mzML
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12-BM-glu-Lr2_neg.mzML
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13-BM-glu-Lr3_neg.mzML
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DERIVED_FILES
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14-BM-glu-spentiso-blank1_neg.mzML
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DERIVED_FILES
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15-BM-glu-spentiso-blank2_neg.mzML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Mass analyzer/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
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IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 50
Returning 26 rows!
Added 26 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8285
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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YearOfAnalysis:
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MassSpectrometer:
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UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 20
Returning 203 rows!
Added 203 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2334
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5615
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
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IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Sample type/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 51%|█████     | 848/1674 [1:49:56<2:06:36,  9.20s/it]
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 297 rows!
Added 297 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8204
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 51%|█████     | 849/1674 [1:50:06<2:09:44,  9.44s/it]
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 148 rows!
Added 148 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5744
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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LN48_4.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 51%|█████     | 850/1674 [1:50:14<2:01:59,  8.88s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 160 rows!
Added 160 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5893
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  : missing value
MassSpectrometer:
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 19 rows!
Added 19 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6032
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600: missing value
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 51%|█████     | 852/1674 [1:50:25<1:35:35,  6.98s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 44 rows!
Added 44 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS726
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES
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Number of rows removed due to not enough metadata: 0
Returning 67 rows!
Added 67 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3112
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
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FILES
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Lonicera-L11-fl-2.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 13
Returning 71 rows!
Added 71 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS619
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3194
Request successful!
SampleCollectionMethod: ADDED!
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IGNORED:  Samples_Organism/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 51%|█████     | 856/1674 [1:50:48<1:19:17,  5.82s/it]
IGNORED:  Is Fluid
IGNORED:  keep
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Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7337
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Dry Cough
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.28
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Fatigue
IGNORED:  Samples_Term Accession Number.16
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Source REF.32
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Samples_Term Source REF.25
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.31
IGNORED:  Samples_Chills/Temperature Lability
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Muscles Ache
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Depression
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Source REF.33
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Cognitive dysfunction
IGNORED:  Samples_Night Sweats
IGNORED:  Samples_Term Accession Number.30
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Total SF-Yes2
IGNORED:  Samples_Nausea
IGNORED:  Samples_Term Accession Number.13
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF.23
IGNORED:  Samples_Disease Staging
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Runny nose
IGNORED:  keep
IGNORED:  Samples_age
IGNORED:  Samples_Timepoint
IGNORED:  Samples_Term Accession Number.26
IGNORED:  extension
IGNORED:  Samples_Term Source REF.29
IGNORED:  Samples_Term Accession Number.32
IGNORED:  Is Organ
IGNORED:  Samples_Term Source REF.13
IGNORED:  Samples_Term Accession Number.14
IGNORED:  Samples_Palpitation
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Samples_Change in taste
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Insomnia
IGNORED:  Samples_Term Source REF.27
IGNORED:  Samples_Term Source REF.34
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Source REF.14
IGNORED:  Samples_Unit
IGNORED:  Samples_Other
IGNORED:  Samples_Weakness
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Term Source REF.18
IGNORED:  Samples_Abdominal Pain
IGNORED:  Samples_Term Source REF.36
IGNORED:  Samples_Variant
IGNORED:  Samples_Term Source REF.30
IGNORED:  Samples_Term Source REF.24
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_DI Instrument
IGNORED:  Samples_All Cardiopulmonary
IGNORED:  Samples_Term Accession Number.28
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Term Accession Number.35
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Source REF.21
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Term Accession Number.15
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Term Accession Number.36
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Source REF.16
IGNORED:  Samples_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 51%|█████     | 857/1674 [1:50:57<1:30:10,  6.62s/it]
 51%|█████▏    | 858/1674 [1:50:59<1:10:36,  5.19s/it]
 51%|█████▏    | 859/1674 [1:51:00<54:17,  4.00s/it]  
IGNORED:  Samples_Term Accession Number.22
IGNORED:  Samples_All Gastrointestinal
IGNORED:  Samples_Term Accession Number.27
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Shortness of breath
IGNORED:  Samples_Term Source REF.15
Number of rows removed due to not enough metadata: 0
Returning 17 rows!
Added 17 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2615
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3332
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS638
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker impact II UHR-TOF: missing value
ChromatographyAndPhase:
   (Phenyl-Hexyl): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Month
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Variant
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Location
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 51%|█████▏    | 860/1674 [1:51:09<1:17:10,  5.69s/it]
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 13
Returning 156 rows!
Added 156 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3388
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Is Descendant/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 51%|█████▏    | 861/1674 [1:51:23<1:48:46,  8.03s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 51%|█████▏    | 862/1674 [1:51:27<1:31:05,  6.73s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 264 rows!
Added 264 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS34
Request successful!
SampleCollectionMethod: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8336
Request successful!
SampleCollectionMethod: ADDED!
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LC_control-2.raw
FILES
RAW_FILES
LCMS
LC_control-3.raw
FILES
RAW_FILES
LCMS
LC_fArgD-1.raw
FILES
RAW_FILES
LCMS
LC_fArgD-1_Orn.raw
FILES
RAW_FILES
LCMS
LC_fArgD-2.raw
FILES
RAW_FILES
LCMS
LC_fArgD-2_Orn.raw
FILES
RAW_FILES
LCMS
LC_fArgD-3.raw
FILES
RAW_FILES
LCMS
LC_fArgD-3_Orn.raw
FILES
RAW_FILES
LCMS
LC_fAstC-1.raw
FILES
RAW_FILES
LCMS
LC_fAstC-1_Orn.raw
FILES
RAW_FILES
LCMS
LC_fAstC-2.raw
FILES
RAW_FILES
LCMS
LC_fAstC-2_Orn.raw
FILES
RAW_FILES
LCMS
LC_fAstC-3.raw
FILES
RAW_FILES
LCMS
LC_fAstC-3_Orn.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Expressed protein
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3449
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_03.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_04.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_05.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_06.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_07.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_08.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_10.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_11.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_12.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_13.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_14.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_15.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_16.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_17.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_19.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_20.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_21.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_22.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_23.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_24.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_25.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_27.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_28.mzML
FILES
14630 SSID Data MZML
Method 1 14630
QXA07POSEAR20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_30.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_03.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_04.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_05.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_06.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_07.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_08.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_10.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_11.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_12.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_13.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_14.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_15.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_16.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_17.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_19.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_20.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_21.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_22.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_23.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_24.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_25.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_27.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_28.mzML
FILES
14630 SSID Data MZML
Method 2 14630
QXA07POSLAT20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_30.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_03.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_04.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_05.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_06.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_07.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_08.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_10.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_11.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_12.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_13.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_14.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_15.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_16.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_17.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_19.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_20.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_21.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_22.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_23.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_24.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_25.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_27.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_28.mzML
FILES
14630 SSID Data MZML
Method 3 14630
QXA05NEG20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_30.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_03.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_04.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_05.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_06.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_07.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_08.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_10.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_11.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_12.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_13.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_14.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_15.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_16.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_17.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_19.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_20.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_21.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_22.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_23.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_24.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_25.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_27.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_28.mzML
FILES
14630 SSID Data MZML
Method 4 14630
QXA06POL20160216_LOUI0115VW_MOUSE_CAECAL_FLUID_30.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_03.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_04.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_05.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_06.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_07.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_08.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_10.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_11.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_12.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_13.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_14.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_15.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_16.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_17.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_19.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_20.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_21.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_22.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_23.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_24.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_25.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_27.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_28.mzML
FILES
14631 SSID Data MZML
Method 1 14631
QXA07POSEAR20160211_LOUI0115VW_MOUSE_SERUM_30.mzML
FILES
14631 SSID Data MZML
Method 2 14631
QXA07POSLAT20160211_LOUI0115VW_MOUSE_SERUM_03.mzML
FILES
14631 SSID Data MZML
Method 2 14631
QXA07POSLAT20160211_LOUI0115VW_MOUSE_SERUM_04.mzML
FILES
14631 SSID Data MZML
Method 2 14631
QXA07POSLAT20160211_LOUI0115VW_MOUSE_SERUM_05.mzML
FILES
14631 SSID Data MZML
Method 2 14631
QXA07POSLAT20160211_LOUI0115VW_MOUSE_SERUM_06.mzML
FILES
14631 SSID Data MZML
Method 2 14631
QXA07POSLAT20160211_LOUI0115VW_MOUSE_SERUM_07.mzML
FILES
14631 SSID Data MZML
Method 2 14631
QXA07POSLAT20160211_LOUI0115VW_MOUSE_SERUM_08.mzML
FILES
14631 SSID Data MZML
Method 2 14631
QXA07POSLAT20160211_LOUI0115VW_MOUSE_SERUM_10.mzML
FILES
14631 SSID Data MZML
Method 2 14631
QXA07POSLAT20160211_LOUI0115VW_MOUSE_SERUM_11.mzML
FILES
14631 SSID Data MZML
Method 2 14631
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14631 SSID Data MZML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Source REF.9
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Native spectrum identifier format
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IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
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IGNORED:  row_id
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IGNORED:  Samples_Vivarium
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
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IGNORED:  Assay_Term Source REF.15
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IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
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IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 192 rows!
Added 192 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS735
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G1 HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Sampling time
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Carbon source
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 486 rows!
Added 486 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS353
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_12.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_13.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_14.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_15.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_17.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_18.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_19.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_20.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_21.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_23.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_24.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_25.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_26.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_27.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_28.mzML
FILES
Method 3
QXA01PDNEG20190118_UDTD0118MDSS7000000133_GRAPE_LEAVES1_30.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_03.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_04.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_05.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_06.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_07.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_08.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_10.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_11.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_12.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_13.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_14.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_15.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_17.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_18.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_19.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_20.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_21.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_23.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_24.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_25.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_26.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_27.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_28.mzML
FILES
Method 4
QXA03PDPOL20190124_UDTD0118MDSS7000000133LEAVES_GRAPE_LEAF1_30.mzML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
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IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Term Accession Number.12
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Vineyard
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 52%|█████▏    | 866/1674 [1:52:02<1:54:51,  8.53s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 52%|█████▏    | 867/1674 [1:52:08<1:42:18,  7.61s/it]
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
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IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Term Source REF.5
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IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3533
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
FILES
RAW_FILES
JSC137_pos.raw
FILES
RAW_FILES
JSC138_pos.raw
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RAW_FILES
JSC140_pos.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Guard column
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IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 3 rows!
Added 3 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS36
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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20100917_46_TomQC.mzML
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20100917_50_NOR_20.mzML
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20100917_51_TomQC.mzML
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20100917_53_NOR_25.mzML
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20100917_61_TomQC.mzML
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20100917_65_NOR_40.mzML
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20100917_66_TomQC.mzML
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20100917_67_Blank.mzML
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20100920_19_TomQC.mzML
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neg_20100927_05_RIN_53.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Organism part
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 442 rows!
Added 442 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3637
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS366
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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DOEI_sample15P_PPL_neg_400k_1to4dil.raw
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DOEI_sample15P_PPL_neg_400k_1to4dil.raw
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DOEI_sample15P_PPL_pos_400k_1to20dil_50pMeFA.raw
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DOEI_sample6P_PPL_neg_400k_1to4dil_50pMe.raw
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DOEI_sample6P_PPL_neg_400k_1to4dil_50pMe.raw
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DOEI_sample6P_PPL_pos_400k_1to20dil_50pMeFA.raw
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DOEI_sample6P_PPL_pos_400k_1to20dil_50pMeFA.raw
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DOEI_sample7P_PPL_neg_400k_1to4dil.raw
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DOEI_sample7P_PPL_neg_400k_1to4dil.raw
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DOEI_sample7P_PPL_pos_400k_1to20dil_50pMeFA.raw
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DOEI_sample7P_PPL_pos_400k_1to20dil_50pMeFA.raw
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DOEI_sample8P_PPL_neg_400k_1to4dil.raw
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DOEI_sample9P_PPL_neg_400k_1to10dil_50pMe.raw
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DOEI_sample9P_PPL_pos_400k_1to20dil_50pMeFA.raw
IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 40 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS374
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3769
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS38
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos: missing value/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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(R)-2-hydroxystearic_acid_neg.mzML
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1-methyl-2-hydroadenosine.mzML
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1-methyltryptophan.mzML
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4-hydroxybenzoic_acid.mzML
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4-hydroxybenzoic_acid_neg.mzML
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5'-S-methyl-5'-thioadenosine.mzML
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6-methoxyquinoline.mzML
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7-methylguanosine.mzML
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9-ribosyl-trans-zeatin.mzML
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D-altrose_neg.mzML
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vanillin_neg.mzML
IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 70
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3854
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS85
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3886
Request successful!
SampleCollectionMethod: ADDED!
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InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 52%|█████▏    | 876/1674 [1:52:53<54:51,  4.12s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 52%|█████▏    | 877/1674 [1:53:02<1:15:14,  5.66s/it]
 52%|█████▏    | 878/1674 [1:53:04<58:17,  4.39s/it]  
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 46 rows!
Added 46 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3887
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Optical Density
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 16
Returning 78 rows!
Added 78 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS678
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 53%|█████▎    | 879/1674 [1:53:10<1:04:20,  4.86s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 53%|█████▎    | 880/1674 [1:53:16<1:10:43,  5.34s/it]
FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_blood plasma
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS40
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
L_01_1.cdf
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alkane_1.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 1
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS682
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
F150507_04_QE1_jbwills_M_PF_PosNeg_21-Gio-HELA-DMSO-2h-posneg-C1-RC1.raw
FILES
F150507_19_QE1_jbwills_M_PF_PosNeg_3-Gio-HCT1116-DMSO-2h-posneg-A3-RA3.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 53%|█████▎    | 881/1674 [1:53:22<1:14:12,  5.61s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 53%|█████▎    | 882/1674 [1:53:29<1:18:03,  5.91s/it]
FILES
F150507_21_QE1_jbwills_M_PF_PosNeg_1-Gio-HCT1116-DMSO-2h-posneg-A1-RA1.raw
FILES
F150507_23_QE1_jbwills_M_PF_PosNeg_12-Gio-RPE1-DMSO-2h-posneg-B2-RB2.raw
FILES
F150507_24_QE1_jbwills_M_PF_PosNeg_27-Gio-HELA-HCTx-2h-posneg-C5-RC6.raw
FILES
F150507_26_QE1_jbwills_M_PF_PosNeg_2-Gio-HCT1116-DMSO-2h-posneg-A2-RA2.raw
FILES
F150507_27_QE1_jbwills_M_PF_PosNeg_18-Gio-RPE1-HCTx-2h-posneg-B6-RB7.raw
FILES
F150507_30_QE1_jbwills_M_PF_PosNeg_26-Gio-HELA-HCTx-2h-posneg-C4-RC5.raw
FILES
F150507_32_QE1_jbwills_M_PF_PosNeg_13-Gio-RPE1-DMSO-2h-posneg-B3-RB3.raw
FILES
F150507_34_QE1_jbwills_M_PF_PosNeg_23-Gio-HELA-DMSO-2h-posneg-C3-RC3.raw
FILES
F150507_35_QE1_jbwills_M_PF_PosNeg_8-Gio-HCT1116-HCTx-2h-posneg-A6-RA7.raw
FILES
F150507_38_QE1_jbwills_M_PF_PosNeg_11-Gio-RPE1-DMSO-2h-posneg-B1-RB1.raw
FILES
F150507_39_QE1_jbwills_M_PF_PosNeg_28-Gio-HELA-HCTx-2h-posneg-C6-RC7.raw
FILES
F150507_42_QE1_jbwills_M_PF_PosNeg_7-Gio-HCT1116-HCTx-2h-posneg-A5-RA6.raw
FILES
F150507_56_QE1_jbwills_M_PF_PosNeg_16-Gio-RPE1-HCTx-2h-posneg-B4-RB5.raw
FILES
F150507_59_QE1_jbwills_M_PF_PosNeg_22-Gio-HELA-DMSO-2h-posneg-C2-RC2.raw
FILES
F150507_60_QE1_jbwills_M_PF_PosNeg_6-Gio-HCT1116-HCTx-2h-posneg-A4-RA5.raw
FILES
F150507_63_QE1_jbwills_M_PF_PosNeg_17-Gio-RPE1-HCTx-2h-posneg-B5-RB6.raw
FILES
F150629_04_QE1_grodrigu_M_PF_Sample_100b.raw
FILES
F150629_05_QE1_grodrigu_M_PF_DMSO_3.raw
FILES
F150629_06_QE1_grodrigu_M_PF_Sample_500b.raw
FILES
F150629_07_QE1_grodrigu_M_PF_Sample_50b.raw
FILES
F150629_08_QE1_grodrigu_M_PF_Sample_5b.raw
FILES
F150629_09_QE1_grodrigu_M_PF_Sample_250c.raw
FILES
F150629_10_QE1_grodrigu_M_PF_DMSO_5.raw
FILES
F150629_11_QE1_grodrigu_M_PF_Sample_25b.raw
FILES
F150629_12_QE1_grodrigu_M_PF_Sample_100a.raw
FILES
F150629_13_QE1_grodrigu_M_PF_Sample_250a.raw
FILES
F150629_14_QE1_grodrigu_M_PF_Sample_500a.raw
FILES
F150629_15_QE1_grodrigu_M_PF_DMSO_1.raw
FILES
F150629_19_QE1_grodrigu_M_PF_DMSO_2.raw
FILES
F150629_20_QE1_grodrigu_M_PF_Sample_5c.raw
FILES
F150629_21_QE1_grodrigu_M_PF_Sample_500c.raw
FILES
F150629_22_QE1_grodrigu_M_PF_DMSO_4.raw
FILES
F150629_23_QE1_grodrigu_M_PF_Sample_50a.raw
FILES
F150629_24_QE1_grodrigu_M_PF_Sample_25a.raw
FILES
F150629_25_QE1_grodrigu_M_PF_DMSO_6.raw
FILES
F150629_26_QE1_grodrigu_M_PF_Sample_5a.raw
FILES
F150629_27_QE1_grodrigu_M_PF_Sample_50c.raw
FILES
F150629_28_QE1_grodrigu_M_PF_Sample_250b.raw
FILES
F150629_29_QE1_grodrigu_M_PF_Sample_100c.raw
FILES
F150629_30_QE1_grodrigu_M_PF_Sample_25c.raw
FILES
HCT116_DMSO_1.raw
FILES
HCT116_DMSO_2.raw
FILES
HCT116_DMSO_3.raw
FILES
HCT116_HCTx_1.raw
FILES
HCT116_HCTx_2.raw
FILES
HCT116_HCTx_3.raw
FILES
HCT116_aza_1.raw
FILES
HCT116_aza_2.raw
FILES
HCT116_aza_3.raw
FILES
HCT116_aza_DMSO_1.raw
FILES
HCT116_aza_DMSO_2.raw
FILES
HCT116_aza_DMSO_3.raw
FILES
HeLa_DMSO_1.raw
FILES
HeLa_DMSO_2.raw
FILES
HeLa_DMSO_3.raw
FILES
HeLa_HCTx_1.raw
FILES
HeLa_HCTx_2.raw
FILES
HeLa_HCTx_3.raw
FILES
RPE1_DMSO_1.raw
FILES
RPE1_DMSO_2.raw
FILES
RPE1_DMSO_3.raw
FILES
RPE1_HCTx_1.raw
FILES
RPE1_HCTx_2.raw
FILES
RPE1_HCTx_3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Concentration
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Drug
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Cell line
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Samples_Experiment
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 66 rows!
Added 66 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8547
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ XL linear ion trap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20230503_Annesha_PC160_181_9_Co(lipid, FA)_Cu(ACN,HCl)_4.raw
FILES
20230706_Annesha_EggYolkPC_6_2.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Assay_DI Instrument
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 1
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS746/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 53%|█████▎    | 883/1674 [1:53:41<1:42:49,  7.80s/it]
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
MS18_15_11.mzML
FILES
MS18_19_13.mzML
FILES
MS18_31_10.mzML
FILES
MS18_41_05.mzML
FILES
MS18_54_11.mzML
FILES
MS18_60_22.mzML
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MS18_61_11.mzML
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MS18_62_12.mzML
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MS18_66_06.mzML
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MS18_69_18.mzML
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MS18_75_03.mzML
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MS18_77_23.mzML
FILES
MS18_85_04.mzML
FILES
MS18_blank_2_02.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Depth
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Species
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_Cruise
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Sampling site
IGNORED:  Samples_Longitude
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Undersea feature
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Latitude
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 1
Returning 13 rows!
Added 13 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS301
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Method 4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3038
Request successful!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3056
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 24 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3075
Request successful!
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IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 64 rows!
Added 64 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3097
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
lipidomics_mzML_negative
Neg12-MousePlasma-1.mzML
FILES
lipidomics_mzML_negative
Neg13-MousePlasma-2.mzML
FILES
lipidomics_mzML_negative
Neg14-MousePlasma-3.mzML
FILES
lipidomics_mzML_negative
Neg15-MousePlasma-4.mzML
FILES
lipidomics_mzML_negative
Neg16-MousePlasma-5.mzML
FILES
lipidomics_mzML_negative
Neg18-MousePlasma-6.mzML
FILES
lipidomics_mzML_negative
Neg19-MousePlasma-7.mzML
FILES
lipidomics_mzML_negative
Neg20-MousePlasma-8.mzML
FILES
lipidomics_mzML_negative
Neg21-MousePlasma-9.mzML
FILES
lipidomics_mzML_negative
Neg22-MousePlasma-10.mzML
FILES
lipidomics_mzML_positive
Pos12-MousePlasma-1.mzML
FILES
lipidomics_mzML_positive
Pos13-MousePlasma-2.mzML
FILES
lipidomics_mzML_positive
Pos14-MousePlasma-3.mzML
FILES
lipidomics_mzML_positive
Pos15-MousePlasma-4.mzML
FILES
lipidomics_mzML_positive
Pos16-MousePlasma-5.mzML
FILES
lipidomics_mzML_positive
Pos18-MousePlasma-6.mzML
FILES
lipidomics_mzML_positive
Pos19-MousePlasma-7.mzML
FILES
lipidomics_mzML_positive
Pos20-MousePlasma-8.mzML
FILES
lipidomics_mzML_positive
Pos21-MousePlasma-9.mzML
FILES
lipidomics_mzML_positive
Pos22-MousePlasma-10.mzML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_01_blank_01.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_02_blank_02.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_03_blank_03.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_17_water_01.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_18_yeast_01.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_19_water_02.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_20_yeast_02.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_21_water_03.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_22_yeast_03.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_23_water_04.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_24_yeast_04.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_25_water_05.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_26_yeast_05.mzXML
FILES
metabolomics_mzXML_negative/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 53%|█████▎    | 888/1674 [1:54:09<1:15:28,  5.76s/it]
Neg_standards_yeast_background_27_water_06.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_28_yeast_06.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_29_water_07.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_30_yeast_07.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_31_water_08.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_32_yeast_08.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_33_water_09.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_34_yeast_09.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_35_water_10.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_36_yeast_10.mzXML
FILES
metabolomics_mzXML_negative
Neg_standards_yeast_background_39_blank_04.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_01_blank_01.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_02_blank_02.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_03_blank_03.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_06_water_01.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_07_yeast_01.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_08_water_02.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_09_yeast_02.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_10_water_03.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_11_yeast_03.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_12_water_04.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_13_yeast_04.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_14_water_05.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_15_yeast_05.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_16_water_06.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_17_yeast_06.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_18_water_07.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_19_yeast_07.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_20_water_08.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_21_yeast_08.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_22_water_09.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_23_yeast_09.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_24_water_10.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_25_yeast_10.mzXML
FILES
metabolomics_mzXML_positive
Pos_standards_yeast_background_28_blank_04.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Spiking
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 68 rows!
Added 68 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3107
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G2-Si HDMS: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
200523-QC-Neg01.raw
FILES
RAW_FILES
NEG
200523-QC-Neg02.raw
FILES
RAW_FILES
NEG
200523-QC-Neg03.raw
FILES
RAW_FILES
NEG
200523-QC-Neg04.raw
FILES
RAW_FILES
NEG
200523-QC-Neg05.raw
FILES
RAW_FILES
NEG
200523-QC-Neg06.raw
FILES
RAW_FILES
NEG
200523-Sample1-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample1-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample10-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample10-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample11-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample11-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample12-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample12-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample13-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample13-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample2-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample2-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample3-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample3-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample4-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample4-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample5-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample5-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample6-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample6-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample7-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample7-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample8-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample8-Neg02.raw
FILES
RAW_FILES
NEG
200523-Sample9-Neg01.raw
FILES
RAW_FILES
NEG
200523-Sample9-Neg02.raw
FILES
RAW_FILES
NEG
200523-SampleC1-Neg01.raw
FILES
RAW_FILES
NEG
200523-SampleC1-Neg02.raw
FILES
RAW_FILES
NEG
200523-SampleC2-Neg01.raw
FILES
RAW_FILES
NEG
200523-SampleC2-Neg02.raw
FILES
RAW_FILES
NEG
200523-SampleC3-Neg01.raw
FILES
RAW_FILES
NEG
200523-SampleC3-Neg02.raw
FILES
RAW_FILES
NEG
200523-SampleC4-Neg01.raw
FILES
RAW_FILES
NEG
200523-SampleC4-Neg02.raw
FILES
RAW_FILES
NEG
200523-SampleC5-Neg01.raw
FILES
RAW_FILES
NEG
200523-SampleC5-Neg02.raw
FILES
RAW_FILES
POS
200523-QC-Pos01.raw
FILES
RAW_FILES
POS
200523-QC-Pos02.raw
FILES
RAW_FILES
POS
200523-QC-Pos03.raw
FILES
RAW_FILES
POS
200523-QC-Pos04.raw
FILES
RAW_FILES
POS
200523-QC-Pos05.raw
FILES
RAW_FILES
POS
200523-QC-Pos06.raw
FILES
RAW_FILES
POS
200523-Sample1-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample1-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample10-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample10-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample11-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample11-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample12-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample12-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample13-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample13-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample2-Pos01.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 53%|█████▎    | 889/1674 [1:54:15<1:14:24,  5.69s/it]
FILES
RAW_FILES
POS
200523-Sample2-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample3-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample3-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample4-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample4-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample5-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample5-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample6-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample6-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample7-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample7-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample8-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample8-Pos02.raw
FILES
RAW_FILES
POS
200523-Sample9-Pos01.raw
FILES
RAW_FILES
POS
200523-Sample9-Pos02.raw
FILES
RAW_FILES
POS
200523-SampleC1-Pos01.raw
FILES
RAW_FILES
POS
200523-SampleC1-Pos02.raw
FILES
RAW_FILES
POS
200523-SampleC2-Pos01.raw
FILES
RAW_FILES
POS
200523-SampleC2-Pos02.raw
FILES
RAW_FILES
POS
200523-SampleC3-Pos01.raw
FILES
RAW_FILES
POS
200523-SampleC3-Pos02.raw
FILES
RAW_FILES
POS
200523-SampleC4-Pos01.raw
FILES
RAW_FILES
POS
200523-SampleC4-Pos02.raw
FILES
RAW_FILES
POS
200523-SampleC5-Pos01.raw
FILES
RAW_FILES
POS
200523-SampleC5-Pos02.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 84 rows!
Added 84 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3109
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-10min-A.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-10min-B.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-10min-C.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-180min-A.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-180min-B.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-180min-C.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-1d-A.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-1d-B.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-1d-C.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-2d-A.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-2d-B.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-2d-C.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-2min-A.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-2min-B.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-2min-C.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-30min-A.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-30min-B.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-30min-C.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-3d-A.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-3d-B.mzML
FILES
DERIVED_FILES
NEG_RP_Polar_LC-MS_Method2A
BAL037_NRG_C-3d-C.mzML
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DERIVED_FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Protocol REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 53%|█████▎    | 890/1674 [1:54:23<1:24:51,  6.49s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
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Number of rows removed due to not enough metadata: 0
Returning 259 rows!
Added 259 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3111
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3128
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FMTB_ROS_NEG_QC_EST1_Inj4.mzML
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Number of rows removed due to not enough metadata: 0
Returning 141 rows!
Added 141 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3129
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
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DERIVED_FILES_positive/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Time point
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_FIA Instrument
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 392 rows!
Added 392 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS689
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ 8000: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 53%|█████▎    | 894/1674 [1:54:50<1:30:49,  6.99s/it]
 53%|█████▎    | 895/1674 [1:54:52<1:08:50,  5.30s/it]
 54%|█████▎    | 896/1674 [1:54:53<54:35,  4.21s/it]  
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 111 rows!
Added 111 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3183
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3184
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS693
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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M82_R3_fruit_2003.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 54%|█████▎    | 897/1674 [1:55:16<2:06:54,  9.80s/it]
 54%|█████▎    | 898/1674 [1:55:18<1:35:05,  7.35s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_season
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_replicate
IGNORED:  Samples_tissue
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_genotype
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 999 rows!
Added 999 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3233
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3315
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 54%|█████▎    | 899/1674 [1:55:27<1:42:48,  7.96s/it]
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Samples_Time after injury
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Samples_Wound stage
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 192 rows!
Added 192 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3316
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Diet
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 54%|█████▍    | 900/1674 [1:55:36<1:47:52,  8.36s/it]
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 192 rows!
Added 192 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3317
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE1_19.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE1_20.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE1_23.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE1_25.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE1_26.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE2_03.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE2_04.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE2_05.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE2_06.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE2_07.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE2_12.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE2_17.mzML
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QXA10POSEAR20190522_DFCI0119VW_MOUSE_PROSTATE2_21.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE1_14.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE1_15.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE1_19.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE1_20.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE1_25.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE2_03.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE2_04.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE2_21.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE2_23.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE2_24.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE2_26.mzML
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QXA10POSLAT20190522_DFCI0119VW_MOUSE_PROSTATE2_30.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 54%|█████▍    | 901/1674 [1:55:45<1:49:21,  8.49s/it]
IGNORED:  Samples_Diet
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 192 rows!
Added 192 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3345
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 2 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 3 23436
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23436 SSID Data MZML
Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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23436 SSID Data MZML
Method 4 23436
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23436 SSID Data MZML
Method 4 23436
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23436 SSID Data MZML
Method 4 23436
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Method 4 23436
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Method 4 23436
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23436 SSID Data MZML
Method 4 23436
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23436 SSID Data MZML
Method 4 23436
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23436 SSID Data MZML
Method 4 23436
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23436 SSID Data MZML
Method 4 23436
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23436 SSID Data MZML
Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 4 23436
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 1 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 2 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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Method 3 23437
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QXA06POL20210712_UNMO0220VW_MOUSE_PLACENTA1_09.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
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IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
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IGNORED:  Assay_MS Assay Name
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Number of rows removed due to not enough metadata: 0
Returning 236 rows!
Added 236 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3444
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3450
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
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NU1925_3.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 1859 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6988
Request successful!
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QC_FS_7.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Samples_Term Accession Number.3
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Number of rows removed due to not enough metadata: 0
Returning 81 rows!
Added 81 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3485
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3487
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  AB SCIEX TripleTOF 5600: missing value
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 54%|█████▍    | 908/1674 [1:56:45<1:19:03,  6.19s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 54%|█████▍    | 909/1674 [1:56:49<1:11:00,  5.57s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 54%|█████▍    | 910/1674 [1:56:53<1:04:27,  5.06s/it]
IGNORED:  Is Descendant
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 74 rows!
Added 74 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3512
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
FILES
mtab_BIOS_CRAM1620_1_072617_34.mzML
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mtab_BIOS_CRAM1620_1_072617_34.mzML
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mtab_BIOS_CRAM1620_1_072617_35.mzML
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FILES
mtab_BIOS_CRAM1620_1_072617_44.mzML
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mtab_BIOS_CRAM1620_1_072617_44.mzML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 20 rows!
Added 10 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3555
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo TQ-XS: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
BV IX alpha QM - Lizzy SS-06-17-2021.raw
FILES
BVIX beta C1 P2 SS-04-30-2021.raw
FILES
BVIX delta C1 P1 SS-04-30-2021.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Is Descendant
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 3 rows!
Added 3 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3563
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker timsTOF Pro: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NEG
AA1-1-auto-MS-MS-neg_13_1_1476.mzML
FILES
DERIVED_FILES
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AA1-2-auto-MS-MS-neg_9_1_1472.mzML
FILES
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AA1-3-auto-MS-MS-neg_6_1_1468.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 54%|█████▍    | 911/1674 [1:56:58<1:05:59,  5.19s/it]
FILES
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NEG
AA10-1-auto-MS-MS-neg_10_1_1473.mzML
FILES
DERIVED_FILES
NEG
AA10-2-auto-MS-MS-neg_8_1_1470.mzML
FILES
DERIVED_FILES
NEG
AA10-3-auto-MS-MS-neg_3_1_1465.mzML
FILES
DERIVED_FILES
NEG
BAP1-1-auto-MS-MS-neg_1_1_1463.mzML
FILES
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Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3565
Request successful!
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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3627
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3628
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
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Number of rows removed due to not enough metadata: 0
Returning 384 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS706
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
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qiita_sample_name: ADDED!
NCBITaxonomy:
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IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_gentotype
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_carbon source
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 6
Returning 26 rows!
Added 26 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3657
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3714
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Waters SYNAPT G2-Si HDMS: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
DERIVED_FILES
NEG
20201021_KAI_SCM1_NR_HDMS_neg_A1_011.mzML
FILES
DERIVED_FILES
NEG
20201021_KAI_SCM1_NR_HDMS_neg_A2_012.mzML
FILES
DERIVED_FILES
NEG
20201021_KAI_SCM1_NR_HDMS_neg_A3_013.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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NEG
20201021_KAI_SCM1_NR_HDMS_neg_A4_014.mzML
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20201021_KAI_SCM1_NR_HDMS_neg_A5_015.mzML
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20201021_KAI_SCM1_NR_HDMS_neg_B1_017.mzML
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20201021_KAI_SCM1_NR_HDMS_neg_B3_019.mzML
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20201021_KAI_SCM1_NR_HDMS_neg_QC_010.mzML
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POS
20201020_KAI_SCM1_NR_HDMS_pos_A1_005.mzML
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20201020_KAI_SCM1_NR_HDMS_pos_A2_007.mzML
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20201020_KAI_SCM1_NR_HDMS_pos_A3_009.mzML
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20201020_KAI_SCM1_NR_HDMS_pos_A4_011.mzML
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20201020_KAI_SCM1_NR_HDMS_pos_B2_017.mzML
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20201020_KAI_SCM1_NR_HDMS_pos_B3_019.mzML
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20201020_KAI_SCM1_NR_HDMS_pos_B4_021.mzML
FILES
DERIVED_FILES
POS
20201020_KAI_SCM1_NR_HDMS_pos_B5_016.mzML
FILES
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POS
20201020_KAI_SCM1_NR_HDMS_pos_QC_004.mzML
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DERIVED_FILES
POS
20201020_KAI_SCM1_NR_HDMS_pos_QC_013.mzML
FILES
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POS
20201020_KAI_SCM1_NR_HDMS_pos_QC_023.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 26 rows!
Added 26 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3838
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3839
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3852
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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METAB01_Smpl_84.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Disease staging
IGNORED:  Samples_Term Source REF
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 110 rows!
Added 110 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3873
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3893
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
  Thermo Scientific Exactive Plus: missing value
  Thermo Scientific Q Exactive: missing value
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  : missing value
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  : missing value
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ENVOEnvironmentMaterial:
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FILES
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See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 103 rows!
Added 103 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3947
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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IGNORED:  Samples_Term Source REF.8
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IGNORED:  Assay_Term Accession Number.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 55%|█████▌    | 927/1674 [1:58:08<1:06:11,  5.32s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 55%|█████▌    | 928/1674 [1:58:12<58:32,  4.71s/it]  
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
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IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  extension
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Number of rows removed due to not enough metadata: 20
Returning 154 rows!
Added 154 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3950
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3963
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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Inc-Trp-5_POS.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 272 rows!
Added 272 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4063
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Sampling time
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 56%|█████▌    | 930/1674 [1:58:29<1:23:42,  6.75s/it]
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_TEBU dose
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Metabolites location
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Experiment type
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 241 rows!
Added 241 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS407
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 500 rows!
Added 500 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS411
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS412
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.7/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 3
Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4126
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Added 0 samples.
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SampleCollectionMethod: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 76 rows!
Added 76 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS414
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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3_4.5b_neg.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 56%|█████▌    | 937/1674 [1:59:14<1:13:03,  5.95s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 56%|█████▌    | 938/1674 [1:59:22<1:19:21,  6.47s/it]
FILES
4_0a.mzXML
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Number of rows removed due to not enough metadata: 0
Returning 76 rows!
Added 76 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4161
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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Country: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 56 rows!
Added 56 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4163
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 56%|█████▌    | 939/1674 [1:59:29<1:22:05,  6.70s/it]
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4187
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 300 rows!
Added 300 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS417
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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PH697025_neg_IDA.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
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IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Term Source REF.2
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 240 rows!
Added 240 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS418
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4186
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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NEG_Ej14WX_S3_6.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS419
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS42
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS420
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Varian 4000 MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
ASP21-M1-01.CDF
FILES
ASP21-M1-02.CDF
FILES
ASP21-M1-03.CDF
FILES
ASP22-M1-01.CDF
FILES
ASP22-M1-02.CDF
FILES
ASP22-M1-03.CDF
FILES
ASP36-M1-00.CDF
FILES
ASP36-M1-01.CDF
FILES
ASP36-M1-02.CDF
FILES
ASP36-M1-03.CDF
FILES
ASP40-M1-01.CDF
FILES
ASP40-M1-02.CDF
FILES
ASP40-M1-03.CDF
FILES
ASP41-M1-01.CDF
FILES
ASP41-M1-02.CDF
FILES
ASP41-M1-03.CDF
FILES
ASP46-M1-01.CDF
FILES
ASP46-M1-02.CDF
FILES
ASP46-M1-03.CDF
FILES
ASP47-M1-01.CDF
FILES
ASP47-M1-02.CDF
FILES
ASP47-M1-03.CDF
FILES
ASP48-M1-01.CDF
FILES
ASP48-M1-02.CDF
FILES
ASP48-M1-03.CDF
FILES
ASP53-M1-01.CDF
FILES
ASP53-M1-02.CDF
FILES
ASP53-M1-03.CDF
FILES
AZN--60-3.CDF
FILES
AZN-29-1.CDF
FILES
AZN-29-2.CDF
FILES
AZN-29-3.CDF
FILES
AZN-29-4.CDF
FILES
AZN-55-1.CDF
FILES
AZN-55-2.CDF
FILES
AZN-55-3.CDF
FILES
AZN-55-4.CDF
FILES
AZN-59-1.CDF
FILES
AZN-59-2.CDF
FILES
AZN-59-3.CDF
FILES
AZN-60-1.CDF
FILES
AZN-60-2.CDF
FILES
AZN-61-1.CDF
FILES
AZN-61-2.CDF
FILES
AZN-61-3.CDF
FILES
AZN-63-1.CDF
FILES
AZN-63-2.CDF
FILES
AZN-63-3.CDF
FILES
AZN-64-1.CDF
FILES
AZN-64-2.CDF
FILES
AZN-64-3.CDF
FILES
AZN-66-1.CDF
FILES
AZN-66-2.CDF
FILES
AZN-66-3.CDF
FILES
AZN-70-1.CDF
FILES
AZN-70-2.CDF
FILES
AZN-70-3.CDF
FILES
AZN-74-1.CDF
FILES
AZN-74-2.CDF
FILES
AZN-74-3.CDF
FILES
F1-01.CDF
FILES
F1-02.CDF
FILES
F1-03.CDF
FILES
F10-01.CDF
FILES
F10-02.CDF
FILES
F10-03.CDF
FILES
F2-01.CDF
FILES
F2-02.CDF
FILES
F2-03.CDF
FILES
F3-01.CDF
FILES
F3-02.CDF
FILES
F3-03.CDF
FILES
F4-01.CDF
FILES
F4-02.CDF
FILES
F4-03.CDF
FILES
F5-01.CDF
FILES
F5-02.CDF
FILES
F5-03.CDF
FILES
F6-01.CDF
FILES
F6-03.CDF
FILES
F7-01.CDF
FILES
F7-02.CDF
FILES
F7-03.CDF
FILES
F8-01.CDF
FILES
F8-02.CDF
FILES
F8-03.CDF
FILES
F9-01.CDF
FILES
F9-02.CDF
FILES
F9-03.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Nonobstructive azoospermia
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 89 rows!
Added 89 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS832
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS424
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS425
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS426
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 57%|█████▋    | 950/1674 [2:00:15<39:19,  3.26s/it]
 57%|█████▋    | 951/1674 [2:00:16<33:00,  2.74s/it]
 57%|█████▋    | 952/1674 [2:00:18<31:21,  2.61s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 57%|█████▋    | 953/1674 [2:00:25<44:20,  3.69s/it]
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Velos: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Maloyan_25679_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_25679_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_25680_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_25680_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_26699_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_26699_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_26990_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_26990_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_26991_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_26991_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27049_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27049_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27133_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27133_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27188_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27188_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27189_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27189_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27365_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27365_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27648_Lip_21Jun16_Legolas_HSS-T3_A925.mzXML
FILES
Maloyan_27648_Lip__NEG_15Jun16_Legolas_HSS-T3_A925.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Diet
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 22 rows!
Added 22 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4268
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS427
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS428
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific TSQ Vantage: missing value
UBERONBodyPartName:
  : missing value
FILES
mtab_VentDOM_tsq_02.raw
FILES
mtab_VentDOM_tsq_03.raw
FILES
mtab_VentDOM_tsq_03.raw
FILES
mtab_VentDOM_tsq_04.raw
FILES
mtab_VentDOM_tsq_04.raw
FILES
mtab_VentDOM_tsq_05.raw
FILES
mtab_VentDOM_tsq_05.raw
FILES
mtab_tsq_cara_020615_20.raw
FILES
mtab_tsq_cara_020615_20.raw
FILES
mtab_tsq_cara_020615_21.raw
FILES
mtab_tsq_cara_020615_21.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Sampling date
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Sample type_1
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 11 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4437
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
10_F85C_mass50-7_LC_pos_direct.raw
FILES
RAW_FILES
11_F209-1C_mass50-7_LC_pos_direct.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 57 rows!
Added 57 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7315
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 120: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Health status
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 102 rows!
Added 102 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4461
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  exactive orbitrap: missing value
IonizationSourceAndPolarity:
  electrospray ionization (negative) (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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20131220__AK__072__41__T595.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Diabetes
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 317
Returning 6526 rows!
Added 6526 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4463
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
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  nan: missing value
ENVOEnvironmentMaterial:
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IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 57%|█████▋    | 957/1674 [2:03:03<6:35:51, 33.13s/it]
IGNORED:  Samples_Term Source REF.2
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Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4286
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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UBERONBodyPartName:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Plant tissue
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Monoculture age
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Plot code
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 57%|█████▋    | 958/1674 [2:03:35<6:30:49, 32.75s/it]
 57%|█████▋    | 959/1674 [2:03:36<4:37:58, 23.33s/it]
 57%|█████▋    | 960/1674 [2:03:38<3:19:42, 16.78s/it]
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 35
Returning 175 rows!
Added 175 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS43
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS430
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS432
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Shimadzu LCMS-IT-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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6-wk_WT_CC_male_36_31__30min_pos-neg_103_Seg1Ev4.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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QC__30min_pos-neg_48_Seg1Ev3.CDF
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QC__30min_pos-neg_48_Seg1Ev4.CDF
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QC__30min_pos-neg_54_Seg1Ev1.CDF
FILES
QC__30min_pos-neg_54_Seg1Ev2.CDF
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QC__30min_pos-neg_54_Seg1Ev3.CDF
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QC__30min_pos-neg_60_Seg1Ev2.CDF
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QC__30min_pos-neg_60_Seg1Ev3.CDF
FILES
QC__30min_pos-neg_60_Seg1Ev4.CDF
FILES
QC__30min_pos-neg_66_Seg1Ev1.CDF
FILES
QC__30min_pos-neg_66_Seg1Ev2.CDF
FILES
QC__30min_pos-neg_66_Seg1Ev3.CDF
FILES
QC__30min_pos-neg_66_Seg1Ev4.CDF
FILES
QC__30min_pos-neg_72_Seg1Ev1.CDF
FILES
QC__30min_pos-neg_72_Seg1Ev2.CDF
FILES
QC__30min_pos-neg_72_Seg1Ev3.CDF
FILES
QC__30min_pos-neg_72_Seg1Ev4.CDF
FILES
QC__30min_pos-neg_78_Seg1Ev1.CDF
FILES
QC__30min_pos-neg_78_Seg1Ev2.CDF
FILES
QC__30min_pos-neg_78_Seg1Ev3.CDF
FILES
QC__30min_pos-neg_78_Seg1Ev4.CDF
FILES
QC__30min_pos-neg_84_Seg1Ev1.CDF
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QC__30min_pos-neg_84_Seg1Ev2.CDF
FILES
QC__30min_pos-neg_84_Seg1Ev3.CDF
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QC__30min_pos-neg_84_Seg1Ev4.CDF
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QC__30min_pos-neg_90_Seg1Ev1.CDF
FILES
QC__30min_pos-neg_90_Seg1Ev2.CDF
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QC__30min_pos-neg_90_Seg1Ev3.CDF
FILES
QC__30min_pos-neg_90_Seg1Ev4.CDF
FILES
QC__30min_pos-neg_96_Seg1Ev1.CDF
FILES
QC__30min_pos-neg_96_Seg1Ev2.CDF
FILES
QC__30min_pos-neg_96_Seg1Ev3.CDF
FILES
QC__30min_pos-neg_96_Seg1Ev4.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_inflammation
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_genotype
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 371 rows!
Added 371 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4321
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 57%|█████▋    | 962/1674 [2:03:55<2:25:44, 12.28s/it]
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  API3200 Triple Quadrupole: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-AA1-1.mzML
FILES
DERIVED_FILES
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FILES
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FILES
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FILES
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FILES
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QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-Growth-Con-1.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-Growth-Con-2.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-Growth-Con-3.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-JA1-1.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-JA1-2.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-JA1-3.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-JA10-1.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-JA10-2.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-JA10-3.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-NAA1-1.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-NAA1-2.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-NAA1-3.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-NAA10-1.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-NAA10-2.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-NAA10-3.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-SA1-1.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-SA1-2.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-SA1-3.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-SA10-1.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-SA10-2.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-SA10-3.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-Stress-Con-1.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-Stress-Con-2.mzML
FILES
DERIVED_FILES
QJZ-21-10-28-Kaitlyn-Hormone-posQJZ-21-10-28-Kaitlyn-Hormone-pos-Stress-Con-3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Phytohormone treatment
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
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IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
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IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Phytohormone concentration
IGNORED:  Assay_Detector
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS433
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker maXis impact UHR-QTOF: missing value/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 58%|█████▊    | 963/1674 [2:04:00<1:58:21,  9.99s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 58%|█████▊    | 964/1674 [2:04:06<1:45:33,  8.92s/it]
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
AX1_GB5_01_10470.mzML
FILES
BD1_GA3_01_10459.mzML
FILES
BL1_GA6_01_10462.mzML
FILES
BL2_GA5_01_10461.mzML
FILES
BR1_GB6_01_10471.mzML
FILES
EX1_GA2_01_10458.mzML
FILES
Fusty_GC3_01_10476.mzML
FILES
KA1_GB1_01_10465.mzML
FILES
LP1_GB3_01_10467.mzML
FILES
Musty_GC4_01_10477.mzML
FILES
NB1_GB8_01_10473.mzML
FILES
PA1_GA4_01_10460.mzML
FILES
PK1_GB7_01_10472.mzML
FILES
RB1_GC1_01_10474.mzML
FILES
RB2_GB4_01_10469.mzML
FILES
RB4_GB2_01_10466.mzML
FILES
Rancid_GC2_01_10475.mzML
FILES
TP1_GA8_01_10464.mzML
FILES
YH1_GA7_01_10463.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Rancid
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Fusty
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Variety
IGNORED:  Samples_Fruitiness
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Harvest date
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Oil quality
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Pungent
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Term Accession Number.13
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Term Source REF.13
IGNORED:  Samples_Term Accession Number.14
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Bitterness
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Production Type
IGNORED:  Samples_Term Source REF.14
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Region
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Musty
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 19 rows!
Added 19 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4572
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS434
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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IGNORED:  Samples_Term Source REF.8
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IGNORED:  Samples_Term Source REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 58%|█████▊    | 965/1674 [2:06:10<8:33:34, 43.46s/it]
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Number of rows removed due to not enough metadata: 908
Returning 5567 rows!
Added 5567 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS435
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS740
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS436
Request successful!
SampleCollectionMethod: ADDED!
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qiita_sample_name: ADDED!
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  Thermo Scientific Q Exactive: missing value
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RP_POS_liver_T_26.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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RP_POS_metabolites_mix_CE35.raw
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RP_POS_metabolites_mix_CE45.raw
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Number of rows removed due to not enough metadata: 8
Returning 168 rows!
Added 168 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4366
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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qiita_sample_name: ADDED!
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 58 rows!
Added 58 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS743
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4381
Request successful!
SampleCollectionMethod: ADDED!
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HOLOFOOD_capLC_POS_SA12_05.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 213 rows!
Added 213 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4382
Request successful!
SampleCollectionMethod: ADDED!
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Try using .loc[row_indexer,col_indexer] = value instead

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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 124 rows!
Added 124 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS44
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS440
Request successful!
SampleCollectionMethod: ADDED!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 58%|█████▊    | 974/1674 [2:06:58<1:31:01,  7.80s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Samples_Breed
IGNORED:  Samples_Cat number
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
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IGNORED:  Assay_Term Source REF.10
IGNORED:  Samples_Body Weight
IGNORED:  Is Fluid
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IGNORED:  Samples_Term Source REF.3
IGNORED:  base
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
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IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Samples_Body Condition Score
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Samples_Health Status
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_FCEAI
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS441
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q I: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 58%|█████▊    | 975/1674 [2:07:05<1:28:31,  7.60s/it]
IGNORED:  Samples_Time after Inoculation
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 160 rows!
Added 160 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4415
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Velos Pro: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Samples_Pyruvate kinase mutation
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IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 58%|█████▊    | 976/1674 [2:07:11<1:22:38,  7.10s/it]
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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Number of rows removed due to not enough metadata: 0
Returning 82 rows!
Added 82 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS442
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
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QXA05NEG20171229_DANO0117VSCLP_RAT_LIVER4_27.mzML
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Method 3
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QXA05NEG20171229_DANO0117VSCLP_RAT_LIVER4_31.mzML
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QXA05NEG20171229_DANO0117VSCLP_RAT_LIVER4_32.mzML
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QXA05NEG20171229_DANO0117VSCLP_RAT_LIVER4_39.mzML
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Method 3
QXA05NEG20171229_DANO0117VSCLP_RAT_LIVER4_40.mzML
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Method 4
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Method 4
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Method 4
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Method 4
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Method 4
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IGNORED:  Assay_Labeled Extract Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 58%|█████▊    | 977/1674 [2:07:22<1:37:17,  8.38s/it]
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Number of rows removed due to not enough metadata: 0
Returning 200 rows!
Added 200 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4431
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS444
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS445
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Is Fluid/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 59%|█████▊    | 980/1674 [2:07:35<1:10:26,  6.09s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 59%|█████▊    | 981/1674 [2:07:40<1:07:45,  5.87s/it]
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Month of collection
IGNORED:  Samples_Location
IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Term Accession Number.7
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IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  filename_lower
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IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.5
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IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 240 rows!
Added 240 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS447
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
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  : missing value
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  nan: missing value
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FILES
WT_ Cotledon 1-1.cdf
FILES
WT_ Cotledon 2-1.cdf
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WT_ Cotledon 3-1.cdf
FILES
WT_ Cotledon 4-1.cdf
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WT_ Cotledon 5-1.cdf
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shr_cotyledon_3_1.cdf
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shr_cotyledon_4_1.cdf
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shr_cotyledon_5_1.cdf
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IGNORED:  Assay_Term Source REF.3
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Protocol REF
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IGNORED:  keep
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IGNORED:  Samples_Sample Name
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 45 rows!
Added 45 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS758
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES
CK_150429_Growth_100.cdf
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CK_150429_Growth_101.cdf
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CK_150429_Growth_104.cdf
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CK_150429_Growth_106.cdf
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CK_150429_Growth_107.cdf
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CK_150429_Growth_109.cdf
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CK_150429_Growth_110.cdf
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CK_150429_Growth_111.cdf
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CK_150429_Growth_112.cdf
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CK_150429_Growth_113.cdf
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CK_150429_Growth_93.cdf
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CK_150429_Growth_95.cdf
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CK_150429_Growth_97.cdf
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CK_150429_Growth_98.cdf
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 59%|█████▊    | 982/1674 [2:07:46<1:08:20,  5.93s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 59%|█████▊    | 983/1674 [2:07:51<1:03:59,  5.56s/it]
 59%|█████▉    | 984/1674 [2:07:53<51:05,  4.44s/it]  
IGNORED:  filename_lower
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Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7576
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific Q Exactive HF-X: missing value
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FILES
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Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS761
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS763
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  electron ionization (positive): missing value
ChromatographyAndPhase:
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FILES
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See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7649
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IGNORED:  Assay_Metabolite Assignment File/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 59%|█████▉    | 988/1674 [2:08:13<57:56,  5.07s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 59%|█████▉    | 989/1674 [2:08:20<1:01:32,  5.39s/it]
IGNORED:  Assay_Scan m/z range
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Returning 108 rows!
Added 108 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS449
Request successful!
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_control
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Antiretroviral Therapy
IGNORED:  Samples_Term Source REF.12
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IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Birth Weight
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_Parturition
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IGNORED:  Assay_Ion source
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Number of rows removed due to not enough metadata: 0
Returning 80 rows!
Added 80 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS451
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES
sake_1_day11_1.raw
FILES
sake_1_day11_2.raw
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sake_1_day16_1.raw
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sake_1_day16_2.raw
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sake_1_day21_1.raw
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sake_1_day21_2.raw
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sake_1_day26_1.raw
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sake_1_day34_1.raw
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sake_1_day34_2.raw
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sake_1_day6_1.raw
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sake_2_day11_2.raw
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sake_2_day19_2.raw
FILES
sake_2_day1_1.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 59%|█████▉    | 990/1674 [2:08:24<58:27,  5.13s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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sake_2_day26_1.raw
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sake_2_day26_2.raw
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sake_2_day34_1.raw
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sake_2_day34_2.raw
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sake_2_day5_1.raw
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sake_2_day5_2.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS452
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
M1_1.mzXML
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M1_2.mzXML
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Returning 56 rows!
Added 56 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS453
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS454
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4542
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 90 rows!
Added 90 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS455
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS456
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4567
Request successful!
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IGNORED:  Assay_Term Source REF.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4568
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4569
Request successful!
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qiita_sample_name: ADDED!
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DERIVED_FILES
HILIC
745A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
746A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
748A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
749A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
750A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
751A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
752A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
753A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
754A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
755A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
756A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
757A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
758A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
759A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
760A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
761A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
762A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
763A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
764A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
765A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
766A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
767A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
768A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
769A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
770A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
771A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
772A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
773A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
774A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
775A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
776A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
777A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
778A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
780A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
781A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
782A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
783A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
784A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
786A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
787A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
788A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
789A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
790A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
791A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
792A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
793A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
794A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
799A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
810A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
811A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
813A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
814A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
815A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
817A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
830A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
831A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
832A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
833A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
834A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
835A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
836A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
837A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
838A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
839A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
840A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
841A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
843A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
844A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
845A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
846A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
847A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
848A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
849A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
850A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
851A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
852A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
853A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
854A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
855A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
856A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
857A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
858A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
859A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
860A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
861A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
862A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
863A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
864A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
865A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
866A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
867A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
868A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
869A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
870A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
871A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
872A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
873A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
874A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
875A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
876A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
877A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
878A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
879A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
880A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
881A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
882A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
883A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
884A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
885A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
886A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
887A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
888A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
889A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
890A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
891A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
892A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
893A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
895A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
896A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
897A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
898A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
899A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
900A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
901A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
902A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
903A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
904A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
905A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
906A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
907A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
909A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
910A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
911A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
912A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
916A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
917A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
918A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
919A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
920A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
921A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
922A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
924A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
925A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
926A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
929A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
931A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
932A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
933A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
934A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
936A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
937A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
939A_Hilic.mzML
FILES
DERIVED_FILES
HILIC
941A_Hilic.mzML
FILES
DERIVED_FILES
RPLC
694A_T3.mzML
FILES
DERIVED_FILES
RPLC
695A_T3.mzML
FILES
DERIVED_FILES
RPLC
696A_T3.mzML
FILES
DERIVED_FILES
RPLC
697A_T3.mzML
FILES
DERIVED_FILES
RPLC
698A_T3.mzML
FILES
DERIVED_FILES
RPLC
699A_T3.mzML
FILES
DERIVED_FILES
RPLC
700A_T3.mzML
FILES
DERIVED_FILES
RPLC
701A_T3.mzML
FILES
DERIVED_FILES
RPLC
702A_T3.mzML
FILES
DERIVED_FILES
RPLC
703A_T3.mzML
FILES
DERIVED_FILES
RPLC
704A_T3.mzML
FILES
DERIVED_FILES
RPLC
705A_T3.mzML
FILES
DERIVED_FILES
RPLC
706A_T3.mzML
FILES
DERIVED_FILES
RPLC
707A_T3.mzML
FILES
DERIVED_FILES
RPLC
708A_T3.mzML
FILES
DERIVED_FILES
RPLC
709A_T3.mzML
FILES
DERIVED_FILES
RPLC
710A_T3.mzML
FILES
DERIVED_FILES
RPLC
711A_T3.mzML
FILES
DERIVED_FILES
RPLC
712A_T3.mzML
FILES
DERIVED_FILES
RPLC
713A_T3.mzML
FILES
DERIVED_FILES
RPLC
714A_T3.mzML
FILES
DERIVED_FILES
RPLC
715A_T3.mzML
FILES
DERIVED_FILES
RPLC
716A_T3.mzML
FILES
DERIVED_FILES
RPLC
717A_T3.mzML
FILES
DERIVED_FILES
RPLC
718A_T3.mzML
FILES
DERIVED_FILES
RPLC
719A_T3.mzML
FILES
DERIVED_FILES
RPLC
720A_T3.mzML
FILES
DERIVED_FILES
RPLC
722A_T3.mzML
FILES
DERIVED_FILES
RPLC
724A_T3.mzML
FILES
DERIVED_FILES
RPLC
725A_T3.mzML
FILES
DERIVED_FILES
RPLC
726A_T3.mzML
FILES
DERIVED_FILES
RPLC
727A_T3.mzML
FILES
DERIVED_FILES
RPLC
728A_T3.mzML
FILES
DERIVED_FILES
RPLC
729A_T3.mzML
FILES
DERIVED_FILES
RPLC
730A_T3.mzML
FILES
DERIVED_FILES
RPLC
732A_T3.mzML
FILES
DERIVED_FILES
RPLC
733A_T3.mzML
FILES
DERIVED_FILES
RPLC
734A_T3.mzML
FILES
DERIVED_FILES
RPLC
735A_T3.mzML
FILES
DERIVED_FILES
RPLC
736A_T3.mzML
FILES
DERIVED_FILES
RPLC
738A_T3.mzML
FILES
DERIVED_FILES
RPLC
739A_T3.mzML
FILES
DERIVED_FILES
RPLC
740A_T3.mzML
FILES
DERIVED_FILES
RPLC
741A_T3.mzML
FILES
DERIVED_FILES
RPLC
742A_T3.mzML
FILES
DERIVED_FILES
RPLC
743A_T3.mzML
FILES
DERIVED_FILES
RPLC
744A_T3.mzML
FILES
DERIVED_FILES
RPLC
745A_T3.mzML
FILES
DERIVED_FILES
RPLC
746A_T3.mzML
FILES
DERIVED_FILES
RPLC
748A_T3.mzML
FILES
DERIVED_FILES
RPLC
749A_T3.mzML
FILES
DERIVED_FILES
RPLC
750A_T3.mzML
FILES
DERIVED_FILES
RPLC
751A_T3.mzML
FILES
DERIVED_FILES
RPLC
752A_T3.mzML
FILES
DERIVED_FILES
RPLC
753A_T3.mzML
FILES
DERIVED_FILES
RPLC
754A_T3.mzML
FILES
DERIVED_FILES
RPLC
755A_T3.mzML
FILES
DERIVED_FILES
RPLC
756A_T3.mzML
FILES
DERIVED_FILES
RPLC
757A_T3.mzML
FILES
DERIVED_FILES
RPLC
758A_T3.mzML
FILES
DERIVED_FILES
RPLC
759A_T3.mzML
FILES
DERIVED_FILES
RPLC
760A_T3.mzML
FILES
DERIVED_FILES
RPLC
761A_T3.mzML
FILES
DERIVED_FILES
RPLC
762A_T3.mzML
FILES
DERIVED_FILES
RPLC
763A_T3.mzML
FILES
DERIVED_FILES
RPLC
764A_T3.mzML
FILES
DERIVED_FILES
RPLC
765A_T3.mzML
FILES
DERIVED_FILES
RPLC
766A_T3.mzML
FILES
DERIVED_FILES
RPLC
767A_T3.mzML
FILES
DERIVED_FILES
RPLC
768A_T3.mzML
FILES
DERIVED_FILES
RPLC
769A_T3.mzML
FILES
DERIVED_FILES
RPLC
770A_T3.mzML
FILES
DERIVED_FILES
RPLC
771A_T3.mzML
FILES
DERIVED_FILES
RPLC
772A_T3.mzML
FILES
DERIVED_FILES
RPLC
773A_T3.mzML
FILES
DERIVED_FILES
RPLC
774A_T3.mzML
FILES
DERIVED_FILES
RPLC
775A_T3.mzML
FILES
DERIVED_FILES
RPLC
776A_T3.mzML
FILES
DERIVED_FILES
RPLC
777A_T3.mzML
FILES
DERIVED_FILES
RPLC
778A_T3.mzML
FILES
DERIVED_FILES
RPLC
780A_T3.mzML
FILES
DERIVED_FILES
RPLC
781A_T3.mzML
FILES
DERIVED_FILES
RPLC
782A_T3.mzML
FILES
DERIVED_FILES
RPLC
783A_T3.mzML
FILES
DERIVED_FILES
RPLC
784A_T3.mzML
FILES
DERIVED_FILES
RPLC
786A_T3.mzML
FILES
DERIVED_FILES
RPLC
787A_T3.mzML
FILES
DERIVED_FILES
RPLC
788A_T3.mzML
FILES
DERIVED_FILES
RPLC
789A_T3.mzML
FILES
DERIVED_FILES
RPLC
790A_T3.mzML
FILES
DERIVED_FILES
RPLC
791A_T3.mzML
FILES
DERIVED_FILES
RPLC
792A_T3.mzML
FILES
DERIVED_FILES
RPLC
793A_T3.mzML
FILES
DERIVED_FILES
RPLC
794A_T3.mzML
FILES
DERIVED_FILES
RPLC
799A_T3.mzML
FILES
DERIVED_FILES
RPLC
810A_T3.mzML
FILES
DERIVED_FILES
RPLC
811A_T3.mzML
FILES
DERIVED_FILES
RPLC
813A_T3.mzML
FILES
DERIVED_FILES
RPLC
814A_T3.mzML
FILES
DERIVED_FILES
RPLC
815A_T3.mzML
FILES
DERIVED_FILES
RPLC
817A_T3.mzML
FILES
DERIVED_FILES
RPLC
830A_T3.mzML
FILES
DERIVED_FILES
RPLC
831A_T3.mzML
FILES
DERIVED_FILES
RPLC
832A_T3.mzML
FILES
DERIVED_FILES
RPLC
833A_T3.mzML
FILES
DERIVED_FILES
RPLC
834A_T3.mzML
FILES
DERIVED_FILES
RPLC
835A_T3.mzML
FILES
DERIVED_FILES
RPLC
836A_T3.mzML
FILES
DERIVED_FILES
RPLC
837A_T3.mzML
FILES
DERIVED_FILES
RPLC
838A_T3.mzML
FILES
DERIVED_FILES
RPLC
839A_T3.mzML
FILES
DERIVED_FILES
RPLC
840A_T3.mzML
FILES
DERIVED_FILES
RPLC
841A_T3.mzML
FILES
DERIVED_FILES
RPLC
843A_T3.mzML
FILES
DERIVED_FILES
RPLC
844A_T3.mzML
FILES
DERIVED_FILES
RPLC
845A_T3.mzML
FILES
DERIVED_FILES
RPLC
846A_T3.mzML
FILES
DERIVED_FILES
RPLC
847A_T3.mzML
FILES
DERIVED_FILES
RPLC
848A_T3.mzML
FILES
DERIVED_FILES
RPLC
849A_T3.mzML
FILES
DERIVED_FILES
RPLC
850A_T3.mzML
FILES
DERIVED_FILES
RPLC
851A_T3.mzML
FILES
DERIVED_FILES
RPLC
852A_T3.mzML
FILES
DERIVED_FILES
RPLC
853A_T3.mzML
FILES
DERIVED_FILES
RPLC
854A_T3.mzML
FILES
DERIVED_FILES
RPLC
855A_T3.mzML
FILES
DERIVED_FILES
RPLC
856A_T3.mzML
FILES
DERIVED_FILES
RPLC
857A_T3.mzML
FILES
DERIVED_FILES
RPLC
858A_T3.mzML
FILES
DERIVED_FILES
RPLC
859A_T3.mzML
FILES
DERIVED_FILES
RPLC
860A_T3.mzML
FILES
DERIVED_FILES
RPLC
861A_T3.mzML
FILES
DERIVED_FILES
RPLC
862A_T3.mzML
FILES
DERIVED_FILES
RPLC
863A_T3.mzML
FILES
DERIVED_FILES
RPLC
864A_T3.mzML
FILES
DERIVED_FILES
RPLC
865A_T3.mzML
FILES
DERIVED_FILES
RPLC
866A_T3.mzML
FILES
DERIVED_FILES
RPLC
867A_T3.mzML
FILES
DERIVED_FILES
RPLC
868A_T3.mzML
FILES
DERIVED_FILES
RPLC
869A_T3.mzML
FILES
DERIVED_FILES
RPLC
870A_T3.mzML
FILES
DERIVED_FILES
RPLC
871A_T3.mzML
FILES
DERIVED_FILES
RPLC
872A_T3.mzML
FILES
DERIVED_FILES
RPLC
873A_T3.mzML
FILES
DERIVED_FILES
RPLC
874A_T3.mzML
FILES
DERIVED_FILES
RPLC
875A_T3.mzML
FILES
DERIVED_FILES
RPLC
876A_T3.mzML
FILES
DERIVED_FILES
RPLC
877A_T3.mzML
FILES
DERIVED_FILES
RPLC
878A_T3.mzML
FILES
DERIVED_FILES
RPLC
879A_T3.mzML
FILES
DERIVED_FILES
RPLC
880A_T3.mzML
FILES
DERIVED_FILES
RPLC
881A_T3.mzML
FILES
DERIVED_FILES
RPLC
882A_T3.mzML
FILES
DERIVED_FILES
RPLC
883A_T3.mzML
FILES
DERIVED_FILES
RPLC
884A_T3.mzML
FILES
DERIVED_FILES
RPLC
885A_T3.mzML
FILES
DERIVED_FILES
RPLC
886A_T3.mzML
FILES
DERIVED_FILES
RPLC
887A_T3.mzML
FILES
DERIVED_FILES
RPLC
888A_T3.mzML
FILES
DERIVED_FILES
RPLC
889A_T3.mzML
FILES
DERIVED_FILES
RPLC
890A_T3.mzML
FILES
DERIVED_FILES
RPLC
891A_T3.mzML
FILES
DERIVED_FILES
RPLC
892A_T3.mzML
FILES
DERIVED_FILES
RPLC
893A_T3.mzML
FILES
DERIVED_FILES
RPLC
895A_T3.mzML
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RPLC/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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904A_T3.mzML
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Returning 400 rows!
Added 400 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4579
Request successful!
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Request successful!
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NEG_Orbitrap_BlackTea_S10n01.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Geographical origin
IGNORED:  Samples_Spiking mix
IGNORED:  Assay_Scan m/z range
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 24
Returning 125 rows!
Added 125 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS459
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 60%|█████▉    | 1002/1674 [2:09:27<1:23:24,  7.45s/it]
 60%|█████▉    | 1003/1674 [2:09:28<1:03:21,  5.67s/it]
  Thermo Scientific Q Exactive: missing value
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
000cnif_IV465_110616210654.mzxml
FILES
000cnif_IV479_110616224142.mzxml
FILES
000cnif_IV495_110617032641.mzxml
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005cnif_IV467_110616201927.mzxml
FILES
005cnif_IV481_110617023901.mzxml
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005cnif_IV497_110616162223.mzxml
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01cnif_IV469_110617001631.mzxml
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01cnif_IV483_110616184437.mzxml
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01cnif_IV499_110616170950.mzxml
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02cnif_IV471_110617015121.mzxml
FILES
02cnif_IV485_110616131220.mzxml
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02cnif_IV501_110616135953.mzxml
FILES
05cIV065.mzxml
FILES
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05cIV272.mzxml
FILES
05cIV386.mzxml
FILES
05cIV435.mzxml
FILES
05cIV451.mzxml
FILES
05cnif_IV473_110616232906.mzxml
FILES
05cnif_IV487_110617010356.mzxml
FILES
05cnif_IV503_110616113726.mzxml
FILES
0Oc15IV032.mzxml
FILES
0Oc15IV043.mzxml
FILES
0Oc15gms424.mzxml
FILES
0cIV057.mzxml
FILES
0cIV187.mzxml
FILES
0cIV270.mzxml
FILES
0cIV384.mzxml
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0cIV433.mzxml
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0cIV449.mzxml
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0cIV578.mzxml
FILES
0cIV586.mzxml
FILES
0cIV594.mzxml
FILES
0cIV608.mzxml
FILES
0cIV617.mzxml
FILES
0cIV628.mzxml
FILES
0cb15IV223.mzxml
FILES
0cb15IV253.mzxml
FILES
0rc15GMS434.mzxml
FILES
0rc15IV016.mzxml
FILES
1cIV097.mzxml
FILES
1cIV191.mzxml
FILES
1cIV274.mzxml
FILES
1cIV388.mzxml
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1cIV437.mzxml
FILES
1cIV453.mzxml
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1cIV580.mzxml
FILES
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1cIV610.mzxml
FILES
1cIV619.mzxml
FILES
1cIV630.mzxml
FILES
24cIV109.mzxml
FILES
24cIV197.mzxml
FILES
24cIV278.mzxml
FILES
24cIV443.mzxml
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24cIV459.mzxml
FILES
24cnif_IV475_110616175714.mzxml
FILES
24cnif_IV489_110616122450.mzxml
FILES
24cnif_IV505_110616144720.mzxml
FILES
2Oc15IV036.mzxml
FILES
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FILES
2Oc15gms428.mzxml
FILES
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2cIV582.mzxml
FILES
2cIV598.mzxml
FILES
2cIV602.mzxml
FILES
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FILES
2cIV622.mzxml
FILES
2cIV632.mzxml
FILES
2cb15IV227.mzxml
FILES
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FILES
2rc15GMS440.mzxml
FILES
2rc15IV022.mzxml
FILES
48cIV111.mzxml
FILES
48cIV199.mzxml
FILES
48cIV280.mzxml
FILES
48cIV396.mzxml
FILES
48cIV445.mzxml
FILES
48cIV461.mzxml
FILES
48cnif_IV491_110616215418.mzxml
FILES
48cnif_IV507_110616153458.mzxml
FILES
5cIV107.mzxml
FILES
5cIV195.mzxml
FILES
5cIV276.mzxml
FILES
5cIV392.mzxml
FILES
5cIV441.mzxml
FILES
5cIV457.mzxml
FILES
5cIV584.mzxml
FILES
5cIV600.mzxml
FILES
5cIV604.mzxml
FILES
5cIV614.mzxml
FILES
5cIV624.mzxml
FILES
5cIV634.mzxml
FILES
GMS224_A.mzxml
FILES
GMS225_A.mzxml
FILES
GMS226_A.mzxml
FILES
GMS227_A.mzxml
FILES
GMS228.mzxml
FILES
GMS229.mzxml
FILES
GMS230.mzxml
FILES
GMS231.mzxml
FILES
GMS232.mzxml
FILES
GMS233.mzxml
FILES
GMS234.mzxml
FILES
GMS235.mzxml
FILES
GMS236.mzxml
FILES
GMS237.mzxml
FILES
GMS268a.mzxml
FILES
GMS269a.mzxml
FILES
GMS270a.mzxml
FILES
GMS271a.mzxml
FILES
GMS272a.mzxml
FILES
GMS279A.mzxml
FILES
GMS280A.mzxml
FILES
GMS281A.mzxml
FILES
GMS282A.mzxml
FILES
GMS322a.mzxml
FILES
GMS324a.mzxml
FILES
GMS326a.mzxml
FILES
GMS328a.mzxml
FILES
GMS354.mzxml
FILES
GMS358.mzxml
FILES
GMS391.mzxml
FILES
GMS395.mzxml
FILES
Iz_TC_DMSF_0hr_04.mzxml
FILES
Iz_TC_DMSF_1hr_07.mzxml
FILES
Iz_TC_DMSF_24hr_10.mzxml
FILES
Iz_TC_DMSF_48hr_13.mzxml
FILES
Iz_TC_DMSF_72hr_16.mzxml
FILES
c00GMS349.mzxml
FILES
c00GMS364.mzxml
FILES
c00GMS372.mzxml
FILES
c01GMS350.mzxml
FILES
c01GMS366.mzxml
FILES
c01GMS374.mzxml
FILES
c24GMS351.mzxml
FILES
c24GMS368.mzxml
FILES
c24GMS376.mzxml
FILES
c48GMS352.mzxml
FILES
c48GMS370.mzxml
FILES
c48GMS378.mzxml
FILES
rIV643.mzxml
FILES
rIV644.mzxml
FILES
rIV645.mzxml
FILES
roIV638.mzxml
FILES
roIV639.mzxml
FILES
roIV640.mzxml
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Experiment
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 153 rows!
Added 153 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS46
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS460
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker compact: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
C12A.mzML
FILES
C12B.mzML
FILES
C12C.mzML
FILES
C12D.mzML
FILES
C12E.mzML
FILES
C1A.mzML
FILES
C1B.mzML
FILES
C1C.mzML
FILES
C1D.mzML
FILES
C1E.mzML
FILES
C2A.mzML
FILES
C2B.mzML
FILES
C2C.mzML
FILES
C2D.mzML
FILES
C2E.mzML
FILES
C3A.mzML
FILES
C3B.mzML
FILES
C3C.mzML
FILES
C3D.mzML
FILES
C3E.mzML
FILES
C6A.mzML
FILES
C6B.mzML
FILES
C6C.mzML
FILES
C6D.mzML
FILES
C6E.mzML
FILES
I12A.mzML
FILES
I12B.mzML
FILES
I12C.mzML
FILES
I12D.mzML
FILES
I12E.mzML
FILES
I1A.mzML
FILES
I1B.mzML
FILES
I1C.mzML
FILES
I1D.mzML
FILES
I1E.mzML
FILES
I2A.mzML
FILES
I2B.mzML
FILES
I2C.mzML
FILES
I2D.mzML
FILES
I2E.mzML
FILES
I3A.mzML
FILES
I3B.mzML
FILES
I3C.mzML
FILES
I3D.mzML
FILES
I3E.mzML
FILES
I6A.mzML
FILES
I6B.mzML
FILES
I6C.mzML
FILES
I6D.mzML
FILES
I6E.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Inoculation
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 60%|█████▉    | 1004/1674 [2:09:34<1:02:52,  5.63s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 60%|██████    | 1005/1674 [2:09:41<1:07:58,  6.10s/it]
 60%|██████    | 1006/1674 [2:09:43<53:34,  4.81s/it]  
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Time post-inoculation
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4618
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
BLANK HILIC NEG.mzML
FILES
DERIVED_FILES
QC-1 HILIC NEG.mzML
FILES
DERIVED_FILES
QC-8 HILIC NEG.mzML
FILES
DERIVED_FILES
S-1 HILIC NEG.mzML
FILES
DERIVED_FILES
S-2 HILIC NEG.mzML
FILES
DERIVED_FILES
S-3 HILIC NEG.mzML
FILES
DERIVED_FILES
S-4 HILIC NEG.mzML
FILES
DERIVED_FILES
S-5 HILIC NEG.mzML
FILES
DERIVED_FILES
S-6 HILIC NEG.mzML
FILES
DERIVED_FILES
T-I-128-1 HILIC NEG.mzML
FILES
DERIVED_FILES
T-I-128-2 HILIC NEG.mzML
FILES
DERIVED_FILES
T-I-128-3 HILIC NEG.mzML
FILES
DERIVED_FILES
T-I-128-4 HILIC NEG.mzML
FILES
DERIVED_FILES
T-I-128-5 HILIC NEG.mzML
FILES
DERIVED_FILES
T-I-128-6 HILIC NEG.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Assay_Derived Spectral Data File.1
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS462
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS464
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Exactive: missing value
  Thermo Scientific Q Exactive: missing value
  Thermo Scientific LTQ Orbitrap Velos: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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BLANK_IV.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 60%|██████    | 1007/1674 [2:09:56<1:22:15,  7.40s/it]
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IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Batch
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Dose
IGNORED:  row_id
Number of rows removed due to not enough metadata: 29
Returning 208 rows!
Added 208 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4654
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion Lumos Tribrid: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
MW1735_ctrl_lysoip_neg_5ul_1.raw
FILES
RAW_FILES
NEG
MW1735_ctrl_lysoip_neg_5ul_2.raw
FILES
RAW_FILES
NEG
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 60%|██████    | 1008/1674 [2:10:01<1:12:50,  6.56s/it]
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 14 rows!
Added 14 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS467
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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Method 1
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Method 1
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IGNORED:  Assay_Term Source REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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PR33_v1_female_arm1_baseline.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 640 rows!
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Request successful!
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SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus IV: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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MeKO_09_14_1.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  keep
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IGNORED:  filename_lower
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 1
Returning 658 rows!
Added 658 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS839
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977A MSD: missing value
ChromatographyAndPhase:
  : missing value
FILES
20150225_016.mzXML
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20150317_012.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 61%|██████    | 1013/1674 [2:10:56<1:55:18, 10.47s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 61%|██████    | 1014/1674 [2:11:02<1:40:06,  9.10s/it]
FILES
20150317_013.mzXML
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20150317_017.mzXML
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20150323_026.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_TMS reagent
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IGNORED:  Samples_Sample Name
IGNORED:  Samples_Amount of water
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Accession Number.6
IGNORED:  filepath
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IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Salinity
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 27
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7766
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  5977B: missing value
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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Normal-1.CDF
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RAW_FILES
Normal-10.CDF
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RAW_FILES
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RAW_FILES
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Normal-9.CDF
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Patient-1.CDF
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Patient-10.CDF
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RAW_FILES
Patient-11.CDF
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RAW_FILES
Patient-13.CDF
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Patient-16.CDF
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  filename_lower
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 37 rows!
Added 37 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS471
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Control_Aq.raw
FILES
Control_Aq_1.raw
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Control_Aq_MSMS_1.raw
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Esco1_Aq.raw
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Esco1_Aq_MSMS_1.raw
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Esco1_Org.raw
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Esco2_Aq.raw
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Esco2_Aq_MSMS_2.raw
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Esco2_Org.raw
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Meta_Aq.raw
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Meta_Aq_600-1550.raw
FILES
Meta_Aq_MSMS.raw
FILES
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FILES
Meta_Org_MSMS.raw
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SG-Sealed_Aq.raw
FILES
SG-Sealed_Aq_MSMS.raw
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SG-Sealed_Org.raw
FILES
SG-Sealed_Org_MSMS.raw
FILES
Trich_Aq.raw
FILES
Trich_Aq_1.raw
FILES
Trich_Aq_MSMS_1.raw
FILES
Trich_Aq_MSMS_2.raw
FILES
Trich_Org.raw
FILES
Trich_Org_1.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 61%|██████    | 1015/1674 [2:11:09<1:32:04,  8.38s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 61%|██████    | 1016/1674 [2:11:15<1:24:12,  7.68s/it]
FILES
Trich_Org_MSMS_1.raw
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Returning 31 rows!
Added 31 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4722
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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Returning 8 rows!
Added 8 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS473
Request successful!
SampleCollectionMethod: ADDED!
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R_JU_T5_8_neg.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Person
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Time Point
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Meal
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 472 rows!
Added 472 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS779
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS841
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS984
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS478
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS78
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SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
IonizationSourceAndPolarity:
   (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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pos_FA_3_Intracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_1_Extracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_1_Intracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_2_Extracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_2_Intracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_3_Extracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_3_Intracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_TPCA1_1_Extracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_TPCA1_1_Intracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_TPCA1_2_Extracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_TPCA1_2_Intracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_TPCA1_3_Extracellular.raw
FILES
LCMS_Hepatocytes
pos_FA_IL17a_TPCA1_3_Intracellular.raw
FILES
LCMS_Hepatocytes
pos_Untreated_1_Extracellular.raw
FILES
LCMS_Hepatocytes
pos_Untreated_1_Intracellular.raw
FILES
LCMS_Hepatocytes
pos_Untreated_2_Extracellular.raw
FILES
LCMS_Hepatocytes
pos_Untreated_2_Intracellular.raw
FILES
LCMS_Hepatocytes
pos_Untreated_3_Extracellular.raw
FILES
LCMS_Hepatocytes
pos_Untreated_3_Intracellular.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Blank-1_Neg.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Blank-1_Pos.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Blank-2_Neg.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Blank-2_Pos.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Pool_Neg-InclusionList.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Pool_Neg-InclusionList_Low-Energy.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Pool_Pos-Incl-LowEnergy.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Pool_Pos-Incl-Reg.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Pool_Pos-Neg-Acetate.raw
FILES
LCMS_Mouse_Liver
Compound_ID_validation
Pool_Pos-Neg-Formate.raw
FILES
LCMS_Mouse_Liver
Negative_mode
Blank-1.raw
FILES
LCMS_Mouse_Liver
Negative_mode
Blank-1b.raw
FILES
LCMS_Mouse_Liver
Negative_mode
Blank-2.raw
FILES
LCMS_Mouse_Liver
Negative_mode
Blank-3.raw
FILES
LCMS_Mouse_Liver
Negative_mode
Blank-4.raw
FILES
LCMS_Mouse_Liver
Negative_mode
ND_mouse1_replicate1.raw
FILES
LCMS_Mouse_Liver
Negative_mode
ND_mouse1_replicate2.raw
FILES
LCMS_Mouse_Liver
Negative_mode
ND_mouse1_replicate3.raw
FILES
LCMS_Mouse_Liver
Negative_mode
ND_mouse2_replicate1.raw
FILES
LCMS_Mouse_Liver
Negative_mode
ND_mouse2_replicate2.raw
FILES
LCMS_Mouse_Liver
Negative_mode
ND_mouse2_replicate3.raw
FILES
LCMS_Mouse_Liver
Negative_mode
ND_mouse3_replicate1.raw
FILES
LCMS_Mouse_Liver
Negative_mode
ND_mouse3_replicate2.raw
FILES
LCMS_Mouse_Liver
Negative_mode
ND_mouse3_replicate3.raw
FILES
LCMS_Mouse_Liver
Negative_mode
Pool_1.raw
FILES
LCMS_Mouse_Liver
Negative_mode
Pool_2.raw
FILES
LCMS_Mouse_Liver
Negative_mode
Pool_3.raw
FILES
LCMS_Mouse_Liver
Negative_mode
WD_mouse1_replicate1.raw
FILES
LCMS_Mouse_Liver
Negative_mode
WD_mouse1_replicate2.raw
FILES
LCMS_Mouse_Liver
Negative_mode
WD_mouse1_replicate3.raw
FILES
LCMS_Mouse_Liver
Negative_mode
WD_mouse2_replicate1.raw
FILES
LCMS_Mouse_Liver
Negative_mode
WD_mouse2_replicate2.raw
FILES
LCMS_Mouse_Liver
Negative_mode
WD_mouse2_replicate3.raw
FILES
LCMS_Mouse_Liver
Negative_mode
WD_mouse3_replicate1.raw
FILES
LCMS_Mouse_Liver
Negative_mode
WD_mouse3_replicate2.raw
FILES
LCMS_Mouse_Liver
Negative_mode
WD_mouse3_replicate3.raw
FILES
LCMS_Mouse_Liver
Positive_mode
Blank-1.raw
FILES
LCMS_Mouse_Liver
Positive_mode
Blank-2.raw
FILES
LCMS_Mouse_Liver
Positive_mode
Blank-3.raw
FILES
LCMS_Mouse_Liver
Positive_mode
Blank-4.raw
FILES
LCMS_Mouse_Liver
Positive_mode
ND_mouse1_replicate1.raw
FILES
LCMS_Mouse_Liver
Positive_mode
ND_mouse1_replicate2.raw
FILES
LCMS_Mouse_Liver
Positive_mode
ND_mouse1_replicate3.raw
FILES
LCMS_Mouse_Liver
Positive_mode
ND_mouse2_replicate1.raw
FILES
LCMS_Mouse_Liver
Positive_mode
ND_mouse2_replicate2.raw
FILES
LCMS_Mouse_Liver
Positive_mode
ND_mouse2_replicate3.raw
FILES
LCMS_Mouse_Liver
Positive_mode
ND_mouse3_replicate1.raw
FILES
LCMS_Mouse_Liver
Positive_mode
ND_mouse3_replicate2.raw
FILES
LCMS_Mouse_Liver
Positive_mode
ND_mouse3_replicate3.raw
FILES
LCMS_Mouse_Liver
Positive_mode
Pool_1.raw
FILES
LCMS_Mouse_Liver
Positive_mode
Pool_2.raw
FILES
LCMS_Mouse_Liver
Positive_mode
Pool_3.raw
FILES
LCMS_Mouse_Liver
Positive_mode
WD_mouse1_replicate1.raw
FILES
LCMS_Mouse_Liver
Positive_mode
WD_mouse1_replicate2.raw
FILES
LCMS_Mouse_Liver
Positive_mode
WD_mouse1_replicate3.raw
FILES
LCMS_Mouse_Liver
Positive_mode
WD_mouse2_replicate1.raw
FILES
LCMS_Mouse_Liver
Positive_mode
WD_mouse2_replicate2.raw
FILES
LCMS_Mouse_Liver
Positive_mode
WD_mouse2_replicate3.raw
FILES
LCMS_Mouse_Liver
Positive_mode
WD_mouse3_replicate1.raw
FILES
LCMS_Mouse_Liver
Positive_mode
WD_mouse3_replicate2.raw
FILES
LCMS_Mouse_Liver
Positive_mode
WD_mouse3_replicate3.raw
FILES
MSImaging
F1
Input
MALDI
20171107_F1_DHBpos_p70_s50.RAW
FILES
MSImaging
F2
Input
MALDI
20171107_F2_DHBpos_p70_s50.RAW
FILES
MSImaging
F3
Input
MALDI
20171107_F3_DHBpos_p70_s50.RAW
FILES
MSImaging
F4
Input
MALDI
20171107_F4_DHBpos_p70_s50.RAW
FILES
MSImaging
FI1
Input
MALDI
20171107_FI1_DHBpos_p70_s50.RAW
FILES
MSImaging
FI2
Input
MALDI
20171107_FI2_DHBpos_p70_s50.RAW
FILES
MSImaging
FI3
Input
MALDI
20171107_FI3_DHBpos_p70_s50.RAW
FILES
MSImaging
FI4
Input
MALDI
20171107_FI4_DHBpos_p70_s50.RAW
FILES
MSImaging
FIT1
Input
MALDI
20171107_FIT1_DHBpos_p70_s50.RAW
FILES
MSImaging
FIT2
Input
MALDI
20171107_FIT2_DHBpos_p70_s50.RAW
FILES
MSImaging
FIT3
Input
MALDI
20171107_FIT3_DHBpos_p70_s50.RAW
FILES
MSImaging
FIT4
Input
MALDI
20171107_FIT4_DHBpos_p70_s50.RAW
FILES
MSImaging
HeLa_1
Input
MALDI
14052018_coculture_HeLa_NIH3T3_H3_Neg.RAW
FILES
MSImaging
HeLa_2
Input
MALDI
14052018_coculture_HeLa_NIH3T3_H4_Neg.RAW
FILES
MSImaging
NIH3T3_1
Input
MALDI
14052018_coculture_HeLa_NIH3T3_N1_Neg.RAW
FILES
MSImaging
NIH3T3_2
Input
MALDI
14052018_coculture_HeLa_NIH3T3_N2_Neg.RAW
FILES
MSImaging
U1
Input
MALDI
20171107_U1_DHBpos_p70_s30.RAW
FILES
MSImaging
U2
Input
MALDI
20171107_U2_DHBpos_p70_s50.RAW
FILES
MSImaging
U3
Input
MALDI
20171107_U3_DHBpos_p70_s50.RAW
FILES
MSImaging
U4
Input/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/Metabolights2REDU.py:173: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df_study['row_id'] = range(1, len(df_study) + 1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 61%|██████    | 1023/1674 [2:11:55<1:18:20,  7.22s/it]
MALDI
20171107_U4_DHBpos_p70_s50.RAW
FILES
MSImaging
coculture_1
Input
MALDI
14052018_coculture_HeLa_NIH3T3_C2_Neg.RAW
FILES
MSImaging
coculture_2
Input
MALDI
14052018_coculture_HeLa_NIH3T3_C4_Neg.RAW
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Stain
IGNORED:  Assay_Max dimension x
IGNORED:  Samples_Term Source REF.9
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Diet
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Linescan sequence
IGNORED:  Samples_Cell culture method
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Target material
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Resolving power m/z
IGNORED:  Assay_Tissue modification
IGNORED:  Assay_Unit.3
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Unit.2
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Assay_High-res image
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Cell culture
IGNORED:  Samples_Condition
IGNORED:  Assay_Max dimension y
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Sectioning instrument
IGNORED:  Assay_Pixel size x
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Cellular component
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Resolving power
IGNORED:  Assay_Unit.5
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Scan type
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Low-res image
IGNORED:  Assay_Matrix application
IGNORED:  keep
IGNORED:  Assay_Line scan direction
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Max count of pixel x
IGNORED:  Assay_Scan pattern
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Sample preservation
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Instrument software version
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Section thickness
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Matrix
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Pixel size y
IGNORED:  Assay_Solvent
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Spatial resolution
IGNORED:  Assay_Term Accession Number.17
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 31
Returning 170 rows!
Added 170 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS842
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20180920_01_Pos_DOPAEx_01_SETP_0_7_SESI_4.mzXML
FILES
20180920_02_Pos_DOPAEx_02_SETP_0_7_SESI_4.mzXML
FILES
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 104 rows!
Added 104 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS481
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4820
Request successful!
SampleCollectionMethod: ADDED!
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4823
Request successful!
SampleCollectionMethod: ADDED!
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pos_MM8_1-F__8_01_25243.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25253.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25264.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25274.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25283.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25294.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25304.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25314.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25324.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25334.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25344.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25349.mzML
FILES
DERIVED_FILES
pos_MM8_1-F__8_01_25355.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Wounding
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 61%|██████▏   | 1027/1674 [2:12:25<1:34:13,  8.74s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 61%|██████▏   | 1028/1674 [2:12:32<1:30:52,  8.44s/it]
 61%|██████▏   | 1029/1674 [2:12:34<1:09:57,  6.51s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 62%|██████▏   | 1030/1674 [2:12:40<1:06:06,  6.16s/it]
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 45
Returning 421 rows!
Added 421 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS484
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Bruker micrOTOF-Q III: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Amp1.mzXML
FILES
Amp2.mzXML
FILES
Amp3.mzXML
FILES
Amp4.mzXML
FILES
Amp5.mzXML
FILES
Blanknew.mzXML
FILES
Hook1.mzXML
FILES
Hook2.mzXML
FILES
Hook3.mzXML
FILES
Hook4.mzXML
FILES
Hook5.mzXML
FILES
Raff1.mzXML
FILES
Raff2.mzXML
FILES
Raff3.mzXML
FILES
Raff4.mzXML
FILES
Raff5.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Pitcher plant
IGNORED:  Samples_Organism part
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Variant
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4854
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4856
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6230 Accurate-Mass TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
30C-1.mzML
FILES
DERIVED_FILES
30C-2.mzML
FILES
DERIVED_FILES
30C-3.mzML
FILES
DERIVED_FILES
30C-4.mzML
FILES
DERIVED_FILES
4C+HG-1.mzML
FILES
DERIVED_FILES
4C+HG-2.mzML
FILES
DERIVED_FILES
4C+HG-3.mzML
FILES
DERIVED_FILES
4C+HG-4.mzML
FILES
DERIVED_FILES
4C+UCP1-1.mzML
FILES
DERIVED_FILES
4C+UCP1-2.mzML
FILES
DERIVED_FILES
4C+UCP1-3.mzML
FILES
DERIVED_FILES
4C+UCP1-4.mzML
FILES
DERIVED_FILES
4C-1.mzML
FILES
DERIVED_FILES
4C-2.mzML
FILES
DERIVED_FILES
4C-3.mzML
FILES
DERIVED_FILES
4C-4.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Group
IGNORED:  Assay_CE Instrument
IGNORED:  Samples_Experiment
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Temperature
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS843
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977A MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20180108_001.mzXML
FILES
20180108_002.mzXML
FILES
20180108_003.mzXML
FILES
20180108_004.mzXML
FILES
20180108_006.mzXML
FILES
20180108_007.mzXML
FILES
20180108_008.mzXML
FILES
20180108_009.mzXML
FILES
20180108_011.mzXML
FILES
20180108_013.mzXML
FILES
20180108_014.mzXML
FILES
20180108_016.mzXML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 62%|██████▏   | 1031/1674 [2:12:47<1:08:36,  6.40s/it]
20180108_017.mzXML
FILES
20180108_018.mzXML
FILES
20180108_019.mzXML
FILES
20180108_021.mzXML
FILES
20180108_022.mzXML
FILES
20180108_023.mzXML
FILES
20180108_024.mzXML
FILES
20180108_026.mzXML
FILES
20180108_027.mzXML
FILES
20180108_028.mzXML
FILES
20180108_029.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 23 rows!
Added 23 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS487
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific MALDI LTQ Orbitrap XL: missing value
IonizationSourceAndPolarity:
   (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
test_POS.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Stain
IGNORED:  Assay_Max dimension x
IGNORED:  Assay_Term Source REF.23
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Assay_Term Source REF.29
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Term Accession Number.23
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Derived Spectral Data File.1
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Linescan sequence
IGNORED:  Assay_Term Accession Number.28
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Term Accession Number.21
IGNORED:  Assay_Target material
IGNORED:  Assay_Term Source REF.35
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Term Accession Number.34
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Accession Number.30
IGNORED:  Assay_Unit.3
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Unit.2
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Source REF.28
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Term Accession Number.24
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Assay_High-res image
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Max dimension y
IGNORED:  Assay_Term Source REF.30
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Sectioning instrument
IGNORED:  Assay_Pixel size x
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Assay_Term Source REF.24
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Unit.5
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Scan type
IGNORED:  Assay_Term Source REF.21
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Source REF.26
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Term Accession Number.35
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Term Accession Number.27
IGNORED:  Assay_Term Source REF.27
IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Term Source REF.33
IGNORED:  Assay_Term Source REF.20
IGNORED:  Assay_Low-res image
IGNORED:  keep
IGNORED:  Assay_Line scan direction
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Max count of pixel x
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See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
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 62%|██████▏   | 1032/1674 [2:12:53<1:07:11,  6.28s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 62%|██████▏   | 1033/1674 [2:13:02<1:15:07,  7.03s/it]
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Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS848
Request successful!
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Returning 71 rows!
Added 71 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS488
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V6 27 7.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 700 rows!
Added 700 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS849
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
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Country: ADDED!
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qiita_sample_name: ADDED!
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FILES
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Number of rows removed due to not enough metadata: 0
Returning 12 rows!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 62%|██████▏   | 1035/1674 [2:13:23<1:29:20,  8.39s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 62%|██████▏   | 1036/1674 [2:13:29<1:19:47,  7.50s/it]
 62%|██████▏   | 1037/1674 [2:13:30<59:36,  5.61s/it]  
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4893
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
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Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4894
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4895
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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ZIK2_neg.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 62%|██████▏   | 1038/1674 [2:13:43<1:23:07,  7.84s/it]
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Returning 270 rows!
Added 270 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS492
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
  Thermo Scientific Q Exactive: missing value
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150920_TS_neg_3C_3min.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 200
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4932
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4933
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS495
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 40 rows!
Added 40 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4980
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 56 rows!
Added 56 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4982
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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Instrumental QC_RP_4.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 682 rows!
Added 682 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4987
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Number of rows removed due to not enough metadata: 6
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4988
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5005
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5011
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Assay_Autosampler model/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 63%|██████▎   | 1048/1674 [2:14:41<51:59,  4.98s/it]
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Number of rows removed due to not enough metadata: 0
Returning 45 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7859
Request successful!
SampleCollectionMethod: ADDED!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 63%|██████▎   | 1049/1674 [2:14:50<1:04:31,  6.19s/it]
 63%|██████▎   | 1050/1674 [2:14:52<51:00,  4.91s/it]  
IGNORED:  Samples_Sample type
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Number of rows removed due to not enough metadata: 129
Returning 22 rows!
Added 22 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS852
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5065
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Fraction
IGNORED:  Samples_Weight
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Animal Feed
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Animal feed producer
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Term Accession Number.13
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Sampling temperature
IGNORED:  keep
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Animal ID
IGNORED:  Samples_Term Source REF.13
IGNORED:  Samples_Term Accession Number.14
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Samples_Batch
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  Samples_Health status
IGNORED:  Samples_Term Source REF.8
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.14
IGNORED:  Samples_Unit
IGNORED:  Samples_Injection order
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_DI Instrument
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 591 rows!
Added 591 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS788
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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LIM_612_9.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 210 rows!
Added 210 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5125
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Focus: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Samples_Sponge species
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Sampling site
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 176 rows!
Added 176 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5132
Request successful!
Added 0 samples.
 63%|██████▎   | 1054/1674 [2:15:28<1:07:17,  6.51s/it]
 63%|██████▎   | 1055/1674 [2:15:34<1:07:34,  6.55s/it]
 63%|██████▎   | 1056/1674 [2:15:36<52:08,  5.06s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 63%|██████▎   | 1057/1674 [2:15:41<52:37,  5.12s/it]
 63%|██████▎   | 1058/1674 [2:15:43<41:39,  4.06s/it]
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5138
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS86
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5152
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6410 Triple Quadrupole: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
C1027.mzML
FILES
DERIVED_FILES
C1027_6292KO_10.mzML
FILES
DERIVED_FILES
C1027_6301KO_10.mzML
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C1027_6306KO_8.mzML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 4 rows!
Added 4 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS516
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS864
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
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FILES
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QXA03POSEAR20230803_KAUS010123VS_MIXED_GRAIN2_28.mzML
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QXA03POSLAT20230803_KAUS010123VS_MIXED_GRAIN1_06.mzML
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QXA03POSLAT20230803_KAUS010123VS_MIXED_GRAIN1_11.mzML
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QXA03POSLAT20230803_KAUS010123VS_MIXED_GRAIN1_26.mzML
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QXA03POSLAT20230803_KAUS010123VS_MIXED_GRAIN2_03.mzML
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QXA03POSLAT20230803_KAUS010123VS_MIXED_GRAIN2_08.mzML
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Method 2
QXA03POSLAT20230803_KAUS010123VS_MIXED_GRAIN2_24.mzML
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Method 2
QXA03POSLAT20230803_KAUS010123VS_MIXED_GRAIN2_28.mzML
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Method 2
QXA03POSLAT20230803_KAUS010123VS_MIXED_GRAIN2_30.mzML
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Method 3
ORB02NEG20230803_KAUS010123VS_MIXED_GRAIN1_06.mzML
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ORB02NEG20230803_KAUS010123VS_MIXED_GRAIN1_11.mzML
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ORB02NEG20230803_KAUS010123VS_MIXED_GRAIN1_13.mzML
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Method 3
ORB02NEG20230803_KAUS010123VS_MIXED_GRAIN1_26.mzML
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Method 3
ORB02NEG20230803_KAUS010123VS_MIXED_GRAIN2_08.mzML
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Method 3
ORB02NEG20230803_KAUS010123VS_MIXED_GRAIN2_30.mzML
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QXA02POL20230803_KAUS010123VS_MIXED_GRAIN1_06.mzML
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Method 4
QXA02POL20230803_KAUS010123VS_MIXED_GRAIN1_11.mzML
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Method 4
QXA02POL20230803_KAUS010123VS_MIXED_GRAIN1_13.mzML
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Method 4
QXA02POL20230803_KAUS010123VS_MIXED_GRAIN1_26.mzML
FILES
Method 4
QXA02POL20230803_KAUS010123VS_MIXED_GRAIN2_03.mzML
FILES
Method 4
QXA02POL20230803_KAUS010123VS_MIXED_GRAIN2_08.mzML
FILES
Method 4
QXA02POL20230803_KAUS010123VS_MIXED_GRAIN2_24.mzML
FILES
Method 4
QXA02POL20230803_KAUS010123VS_MIXED_GRAIN2_28.mzML
FILES
Method 4
QXA02POL20230803_KAUS010123VS_MIXED_GRAIN2_30.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
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IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
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IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Term Accession Number.19
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IGNORED:  Assay_Detector mode
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IGNORED:  Assay_Term Accession Number.5/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 63%|██████▎   | 1059/1674 [2:15:48<46:04,  4.50s/it]
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Samples_Crop type
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IGNORED:  Assay_Term Source REF.7
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IGNORED:  Assay_Term Accession Number.16
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IGNORED:  Assay_Term Source REF.15
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IGNORED:  Assay_Term Source REF
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IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Term Accession Number.17
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IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS518
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
VT_150417_001.cdf
FILES
VT_150417_002.cdf
FILES
VT_150417_003.cdf
FILES
VT_150417_004.cdf
FILES
VT_150417_005.cdf
FILES
VT_150417_006.cdf
FILES
VT_150417_007.cdf
FILES
VT_150417_008.cdf
FILES
VT_150417_009.cdf
FILES
VT_150417_010.cdf
FILES
VT_150417_011.cdf
FILES
VT_150417_012.cdf
FILES
VT_150417_013.cdf
FILES
VT_150417_014.cdf
FILES
VT_150417_015.cdf
FILES
VT_150417_016.cdf
FILES
VT_150417_017.cdf
FILES
VT_150417_018.cdf
FILES
VT_150417_019.cdf
FILES
VT_150417_020.cdf
FILES
VT_150417_021.cdf
FILES
VT_150417_022.cdf
FILES
VT_150417_023.cdf
FILES
VT_150417_024.cdf
FILES
VT_150417_025.cdf
FILES
VT_150417_026.cdf
FILES
VT_150417_027.cdf
FILES
VT_150417_028.cdf
FILES
VT_150417_029.cdf
FILES
VT_150417_030.cdf
FILES
VT_150417_031.cdf
FILES
VT_150417_032.cdf
FILES
VT_150417_033.cdf
FILES
VT_150417_034.cdf
FILES
VT_150417_035.cdf
FILES
VT_150417_036.cdf
FILES
VT_150417_037.cdf
FILES
VT_150417_038.cdf
FILES
VT_150417_039.cdf
FILES
VT_150417_040.cdf
FILES
VT_150417_041.cdf
FILES
VT_150417_042.cdf
FILES
VT_150417_043.cdf
FILES
VT_150417_044.cdf
FILES
VT_150417_045.cdf
FILES
VT_150417_046.cdf
FILES
VT_150417_047.cdf
FILES
VT_150417_048.cdf
FILES
VT_150417_049.cdf
FILES
VT_150417_050.cdf
FILES
VT_150417_051.cdf
FILES
VT_150417_052.cdf
FILES
VT_150417_053.cdf
FILES
VT_150417_054.cdf
FILES
VT_150417_055.cdf
FILES
VT_150417_056.cdf
FILES
VT_150417_057.cdf
FILES
VT_150417_058.cdf
FILES
VT_150417_059.cdf
FILES
VT_150417_060.cdf
FILES
VT_150417_061.cdf
FILES
VT_150417_062.cdf
FILES
VT_150417_063.cdf
FILES
VT_150417_064.cdf
FILES
VT_150417_065.cdf
FILES
VT_150417_066.cdf
FILES
VT_150417_067.cdf
FILES
VT_150417_068.cdf
FILES
VT_150417_069.cdf
FILES
VT_150417_070.cdf
FILES
VT_150417_071.cdf
FILES
VT_150417_072.cdf
FILES
VT_150417_073.cdf
FILES
VT_150417_074.cdf
FILES
VT_150417_075.cdf
FILES
VT_150417_076.cdf
FILES
VT_150417_077.cdf
FILES
VT_150417_078.cdf
FILES
VT_150417_079.cdf
FILES
VT_150417_080.cdf
FILES
VT_150417_081.cdf
FILES
VT_150417_082.cdf
FILES
VT_150417_083.cdf
FILES
VT_150417_084.cdf
FILES
VT_150417_085.cdf
FILES
VT_150417_086.cdf
FILES
VT_150417_087.cdf
FILES
VT_150417_088.cdf
FILES
VT_150417_089.cdf
FILES
VT_150417_090.cdf
FILES
VT_150417_091.cdf
FILES
VT_150417_092.cdf
FILES
VT_150417_093.cdf
FILES
VT_150417_094.cdf
FILES
VT_150417_095.cdf
FILES
VT_150417_096.cdf
FILES
VT_150417_097.cdf
FILES
VT_150417_098.cdf
FILES
VT_150417_099.cdf
FILES
VT_150417_100.cdf
FILES
VT_150417_101.cdf
FILES
VT_150417_102.cdf
FILES
VT_150417_103.cdf
FILES
VT_150417_104.cdf
FILES
VT_150417_105.cdf
FILES
VT_150417_106.cdf
FILES
VT_150417_107.cdf
FILES
VT_150417_108.cdf
FILES
VT_150417_109.cdf
FILES
VT_150417_110.cdf
FILES
VT_150417_111.cdf
FILES
VT_150417_112.cdf
FILES
VT_150417_113.cdf
FILES
VT_150417_114.cdf
FILES
VT_150417_115.cdf
FILES
VT_150417_116.cdf
FILES
VT_150417_117.cdf
FILES
VT_150417_118.cdf
FILES
VT_150417_119.cdf
FILES
VT_150417_120.cdf
FILES
VT_150417_121.cdf
FILES
VT_150417_122.cdf
FILES
VT_150417_123.cdf
FILES
VT_150417_124.cdf
FILES
VT_150417_125.cdf
FILES
VT_150417_126.cdf
FILES
VT_150417_127.cdf
FILES
VT_150417_128.cdf
FILES
VT_150417_129.cdf
FILES
VT_150417_130.cdf
FILES
VT_150417_131.cdf
FILES
VT_150417_132.cdf
FILES
VT_150417_133.cdf
FILES
VT_150417_134.cdf
FILES
VT_150417_135.cdf
FILES
VT_150417_136.cdf
FILES
VT_150417_137.cdf
FILES
VT_150417_138.cdf
FILES
VT_150417_139.cdf
FILES
VT_150417_140.cdf
FILES
VT_150417_141.cdf
FILES
VT_150417_142.cdf
FILES
VT_150417_143.cdf
FILES
VT_150417_144.cdf
FILES
VT_150417_145.cdf
FILES
VT_150417_146.cdf
FILES
VT_150417_147.cdf
FILES
VT_150417_148.cdf
FILES
VT_150417_149.cdf
FILES
VT_150417_150.cdf
FILES
VT_150417_151.cdf
FILES
VT_150417_152.cdf
FILES
VT_150417_153.cdf
FILES
VT_150417_154.cdf
FILES
VT_150417_155.cdf
FILES
VT_150417_156.cdf
FILES
VT_150418_001.cdf
FILES
VT_150418_002.cdf
FILES
VT_150418_003.cdf
FILES
VT_150418_004.cdf
FILES
VT_150418_005.cdf
FILES
VT_150418_006.cdf
FILES
VT_150418_007.cdf
FILES
VT_150418_008.cdf
FILES
VT_150418_009.cdf
FILES
VT_150418_010.cdf
FILES
VT_150418_011.cdf
FILES
VT_150418_012.cdf
FILES
VT_150418_013.cdf
FILES
VT_150418_014.cdf
FILES
VT_150418_015.cdf
FILES
VT_150418_016.cdf
FILES
VT_150418_017.cdf
FILES
VT_150418_018.cdf
FILES
VT_150418_019.cdf
FILES
VT_150418_020.cdf
FILES
VT_150418_021.cdf
FILES
VT_150418_022.cdf
FILES
VT_150418_023.cdf
FILES
VT_150418_024.cdf
FILES
VT_150418_025.cdf
FILES
VT_150418_026.cdf
FILES
VT_150418_027.cdf
FILES
VT_150418_028.cdf
FILES
VT_150418_029.cdf
FILES
VT_150418_030.cdf
FILES
VT_150418_031.cdf
FILES
VT_150418_032.cdf
FILES
VT_150418_033.cdf
FILES
VT_150418_034.cdf
FILES
VT_150418_035.cdf
FILES
VT_150418_036.cdf
FILES
VT_150418_037.cdf
FILES
VT_150418_038.cdf
FILES
VT_150418_039.cdf
FILES
VT_150418_040.cdf
FILES
VT_150418_041.cdf
FILES
VT_150418_042.cdf
FILES
VT_150418_043.cdf
FILES
VT_150418_044.cdf
FILES
VT_150418_045.cdf
FILES
VT_150418_046.cdf
FILES
VT_150418_047.cdf
FILES
VT_150418_048.cdf
FILES
VT_150418_049.cdf
FILES
VT_150418_050.cdf
FILES
VT_150418_051.cdf
FILES
VT_150418_052.cdf
FILES
VT_150418_053.cdf
FILES
VT_150418_054.cdf
FILES
VT_150418_055.cdf
FILES
VT_150418_056.cdf
FILES
VT_150418_057.cdf
FILES
VT_150418_058.cdf
FILES
VT_150418_059.cdf
FILES
VT_150418_060.cdf
FILES
VT_150418_061.cdf
FILES
VT_150418_062.cdf
FILES
VT_150418_063.cdf
FILES
VT_150418_064.cdf
FILES
VT_150418_065.cdf
FILES
VT_150418_066.cdf
FILES
VT_150418_067.cdf
FILES
VT_150418_068.cdf
FILES
VT_150418_069.cdf
FILES
VT_150418_070.cdf
FILES
VT_150418_071.cdf
FILES
VT_150418_072.cdf
FILES
VT_150418_073.cdf
FILES
VT_150418_074.cdf
FILES
VT_150418_075.cdf
FILES
VT_150418_076.cdf
FILES
VT_150418_077.cdf
FILES
VT_150418_078.cdf
FILES
VT_150418_079.cdf
FILES
VT_150418_080.cdf
FILES
VT_150418_081.cdf
FILES
VT_150418_082.cdf
FILES
VT_150418_083.cdf
FILES
VT_150418_084.cdf
FILES
VT_150418_085.cdf
FILES
VT_150418_086.cdf
FILES
VT_150418_087.cdf
FILES
VT_150418_088.cdf
FILES
VT_150418_089.cdf
FILES
VT_150418_090.cdf
FILES
VT_150418_091.cdf
FILES
VT_150418_092.cdf
FILES
VT_150418_093.cdf
FILES
VT_150418_094.cdf
FILES
VT_150418_095.cdf
FILES
VT_150418_096.cdf
FILES
VT_150418_097.cdf
FILES
VT_150418_098.cdf
FILES
VT_150418_099.cdf
FILES
VT_150418_100.cdf
FILES
VT_150418_101.cdf
FILES
VT_150418_102.cdf
FILES
VT_150418_103.cdf
FILES
VT_150418_104.cdf
FILES
VT_150418_105.cdf
FILES
VT_150418_106.cdf
FILES
VT_150418_107.cdf
FILES
VT_150418_108.cdf
FILES
VT_150418_109.cdf
FILES
VT_150418_110.cdf
FILES
VT_150418_111.cdf
FILES
VT_150418_112.cdf
FILES
VT_150418_113.cdf
FILES
VT_150418_114.cdf
FILES
VT_150418_115.cdf
FILES
VT_150418_116.cdf
FILES
VT_150418_117.cdf
FILES
VT_150418_118.cdf
FILES
VT_150418_119.cdf
FILES
VT_150418_120.cdf
FILES
VT_150418_121.cdf
FILES
VT_150418_122.cdf
FILES
VT_150418_123.cdf
FILES
VT_150418_124.cdf
FILES
VT_150418_125.cdf
FILES
VT_150418_126.cdf
FILES
VT_150418_127.cdf
FILES
VT_150418_128.cdf
FILES
VT_150418_129.cdf
FILES
VT_150418_130.cdf
FILES
VT_150418_131.cdf
FILES
VT_150418_132.cdf
FILES
VT_150418_133.cdf
FILES
VT_150418_134.cdf
FILES
VT_150418_135.cdf
FILES
VT_150418_136.cdf
FILES
VT_150418_137.cdf
FILES
VT_150418_138.cdf
FILES
VT_150418_139.cdf
FILES
VT_150418_140.cdf
FILES
VT_150418_141.cdf
FILES
VT_150418_142.cdf
FILES
VT_150418_143.cdf
FILES
VT_150418_144.cdf
FILES
VT_150418_145.cdf
FILES
VT_150418_146.cdf
FILES
VT_150418_147.cdf
FILES
VT_150418_148.cdf
FILES
VT_150418_149.cdf
FILES
VT_150418_150.cdf
FILES
VT_150419_001.cdf
FILES
VT_150419_002.cdf
FILES
VT_150419_003.cdf
FILES
VT_150419_004.cdf
FILES
VT_150419_005.cdf
FILES
VT_150419_006.cdf
FILES
VT_150419_007.cdf
FILES
VT_150419_008.cdf
FILES
VT_150419_009.cdf
FILES
VT_150419_010.cdf
FILES
VT_150419_011.cdf
FILES
VT_150419_012.cdf
FILES
VT_150419_013.cdf
FILES
VT_150419_014.cdf
FILES
VT_150419_015.cdf
FILES
VT_150419_016.cdf
FILES
VT_150419_017.cdf
FILES
VT_150419_018.cdf
FILES
VT_150419_019.cdf
FILES
VT_150419_020.cdf
FILES
VT_150419_021.cdf
FILES
VT_150419_022.cdf
FILES
VT_150419_023.cdf
FILES
VT_150419_024.cdf
FILES
VT_150419_025.cdf
FILES
VT_150419_026.cdf
FILES
VT_150419_027.cdf
FILES
VT_150419_028.cdf
FILES
VT_150419_029.cdf
FILES
VT_150419_030.cdf
FILES
VT_150419_031.cdf
FILES
VT_150419_032.cdf
FILES
VT_150419_033.cdf
FILES
VT_150419_034.cdf
FILES
VT_150419_035.cdf
FILES
VT_150419_036.cdf
FILES
VT_150419_037.cdf
FILES
VT_150419_038.cdf
FILES
VT_150419_039.cdf
FILES
VT_150419_040.cdf
FILES
VT_150419_041.cdf
FILES
VT_150419_042.cdf
FILES
VT_150419_043.cdf
FILES
VT_150419_044.cdf
FILES
VT_150419_045.cdf
FILES
VT_150419_046.cdf
FILES
VT_150419_047.cdf
FILES
VT_150419_048.cdf
FILES
VT_150419_049.cdf
FILES
VT_150419_050.cdf
FILES
VT_150419_051.cdf
FILES
VT_150419_052.cdf
FILES
VT_150419_053.cdf
FILES
VT_150419_054.cdf
FILES
VT_150419_055.cdf
FILES
VT_150419_056.cdf
FILES
VT_150419_057.cdf
FILES
VT_150419_058.cdf
FILES
VT_150419_059.cdf
FILES
VT_150419_060.cdf
FILES
VT_150419_061.cdf
FILES
VT_150419_062.cdf
FILES
VT_150419_063.cdf
FILES
VT_150419_064.cdf
FILES
VT_150419_065.cdf
FILES
VT_150419_066.cdf
FILES
VT_150419_067.cdf
FILES
VT_150419_068.cdf
FILES
VT_150419_069.cdf
FILES
VT_150419_070.cdf
FILES
VT_150419_071.cdf
FILES
VT_150419_072.cdf
FILES
VT_150419_073.cdf
FILES
VT_150419_074.cdf
FILES
VT_150419_075.cdf
FILES
VT_150419_076.cdf
FILES
VT_150419_077.cdf
FILES
VT_150419_078.cdf
FILES
VT_150419_079.cdf
FILES
VT_150419_080.cdf
FILES
VT_150419_081.cdf
FILES
VT_150419_082.cdf
FILES
VT_150419_083.cdf
FILES
VT_150419_084.cdf
FILES
VT_150419_085.cdf
FILES
VT_150419_086.cdf
FILES
VT_150419_087.cdf
FILES
VT_150419_088.cdf
FILES
VT_150419_089.cdf
FILES
VT_150419_090.cdf
FILES
VT_150419_091.cdf
FILES
VT_150419_092.cdf
FILES
VT_150419_093.cdf
FILES
VT_150419_094.cdf
FILES
VT_150419_095.cdf
FILES
VT_150419_096.cdf
FILES
VT_150419_097.cdf
FILES
VT_150419_098.cdf
FILES
VT_150419_099.cdf
FILES
VT_150419_100.cdf
FILES
VT_150419_101.cdf
FILES
VT_150419_102.cdf
FILES
VT_150419_103.cdf
FILES
VT_150419_104.cdf
FILES
VT_150419_105.cdf
FILES
VT_150419_106.cdf
FILES
VT_150419_107.cdf
FILES
VT_150419_108.cdf
FILES
VT_150419_109.cdf
FILES
VT_150419_110.cdf
FILES
VT_150419_111.cdf
FILES
VT_150419_112.cdf
FILES
VT_150419_113.cdf
FILES
VT_150419_114.cdf
FILES
VT_150419_115.cdf
FILES
VT_150419_116.cdf
FILES
VT_150419_117.cdf
FILES
VT_150419_118.cdf
FILES
VT_150419_119.cdf
FILES
VT_150419_120.cdf
FILES
VT_150419_121.cdf
FILES
VT_150419_122.cdf
FILES
VT_150419_123.cdf
FILES
VT_150419_124.cdf
FILES
VT_150419_125.cdf
FILES
VT_150419_126.cdf
FILES
VT_150419_127.cdf
FILES
VT_150419_128.cdf
FILES
VT_150419_129.cdf
FILES
VT_150419_130.cdf
FILES
VT_150419_131.cdf
FILES
VT_150419_132.cdf
FILES
VT_150419_133.cdf
FILES
VT_150419_134.cdf
FILES
VT_150419_135.cdf
FILES
VT_150419_136.cdf
FILES
VT_150419_137.cdf
FILES
VT_150419_138.cdf
FILES
VT_150419_139.cdf
FILES
VT_150419_140.cdf
FILES
VT_150419_141.cdf
FILES
VT_150419_142.cdf
FILES
VT_150419_143.cdf
FILES
VT_150419_144.cdf
FILES
VT_150419_145.cdf
FILES
VT_150419_146.cdf
FILES
VT_150419_147.cdf
FILES
VT_150419_148.cdf
FILES
VT_150419_149.cdf
FILES
VT_150419_150.cdf
FILES
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FILES
VT_150421_002.cdf
FILES
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FILES
VT_150421_004.cdf
FILES
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FILES
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FILES
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FILES
VT_150421_008.cdf
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
VT_150421_025.cdf
FILES
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FILES
VT_150421_027.cdf
FILES
VT_150421_028.cdf
FILES
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FILES
VT_150421_030.cdf
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
VT_150421_041.cdf
FILES
VT_150421_042.cdf
FILES
VT_150421_043.cdf
FILES
VT_150421_044.cdf
FILES
VT_150421_045.cdf
FILES
VT_150421_046.cdf
FILES
VT_150421_047.cdf
FILES
VT_150421_048.cdf
FILES
VT_150421_049.cdf
FILES
VT_150421_050.cdf
FILES
VT_150421_051.cdf
FILES
VT_150421_052.cdf
FILES
VT_150421_053.cdf
FILES
VT_150421_054.cdf
FILES
VT_150421_055.cdf
FILES
VT_150421_056.cdf
FILES
VT_150421_057.cdf
FILES
VT_150421_058.cdf
FILES
VT_150421_059.cdf
FILES
VT_150421_060.cdf
FILES
VT_150421_061.cdf
FILES
VT_150421_062.cdf
FILES
VT_150421_063.cdf
FILES
VT_150421_064.cdf
FILES
VT_150421_065.cdf
FILES
VT_150421_066.cdf
FILES
VT_150421_067.cdf
FILES
VT_150421_068.cdf
FILES
VT_150421_069.cdf
FILES
VT_150421_070.cdf
FILES
VT_150421_071.cdf
FILES
VT_150421_072.cdf
FILES
VT_150421_073.cdf
FILES
VT_150421_074.cdf
FILES
VT_150421_075.cdf
FILES
VT_150421_076.cdf
FILES
VT_150421_077.cdf
FILES
VT_150421_078.cdf
FILES
VT_150421_079.cdf
FILES
VT_150421_080.cdf
FILES
VT_150421_081.cdf
FILES
VT_150421_082.cdf
FILES
VT_150421_083.cdf
FILES
VT_150421_084.cdf
FILES
VT_150421_085.cdf
FILES
VT_150421_086.cdf
FILES
VT_150421_087.cdf
FILES
VT_150421_088.cdf
FILES
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VT_150501_134.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 1968 rows!
Added 1968 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5185
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-XS QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Assay_Mass analyzer
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Number of rows removed due to not enough metadata: 0
Returning 58 rows!
Added 58 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS866
Request successful!
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A value is trying to be set on a copy of a slice from a DataFrame.
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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 12
Returning 420 rows!
Added 420 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5195
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS52
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS520
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q II: missing value
ENVOEnvironmentBiome:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Accession Number.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Light conditions
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Samples_Soil humidity
IGNORED:  filepath
IGNORED:  Samples_Substrate
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 51
Returning 216 rows!
Added 216 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS522
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5228
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion Lumos Tribrid: missing value
UBERONBodyPartName:
  : missing value
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mtab_BIOSSCOPE_exometab_pos5_031520_094.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 1992 rows!
Added 1021 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS523
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.5
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IGNORED:  Assay_Label
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 23 rows!
Added 23 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS868
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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FILES
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FILES
FRAG_POS.mzML
FILES
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HD871_1_1_n.mzXML
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HD871_1_2.mzxml
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HD871_1_2_n.mzXML
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HD871_1_3.mzxml
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HD871_1_3_n.mzXML
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HD871_1_4.mzxml/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 64%|██████▍   | 1069/1674 [2:17:48<1:33:33,  9.28s/it]
FILES
HD871_1_4_n.mzXML
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HD871_2_1.mzxml
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 12
Returning 34 rows!
Added 34 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS525
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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Country: ADDED!
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MassSpectrometer:
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IGNORED:  base/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 64%|██████▍   | 1070/1674 [2:17:54<1:24:15,  8.37s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 64%|██████▍   | 1071/1674 [2:17:59<1:13:21,  7.30s/it]
IGNORED:  Samples_Term Source REF.5
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Number of rows removed due to not enough metadata: 87
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS527
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 71 rows!
Added 71 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS528
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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38_1.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 64%|██████▍   | 1072/1674 [2:18:08<1:19:31,  7.93s/it]
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Number of rows removed due to not enough metadata: 0
Returning 216 rows!
Added 216 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5288
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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qiita_sample_name: ADDED!
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025__20210211__CLIN018__MICU_177_01__dil.mzML
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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031__20210212__CLIN019__MICU_214_01__dil.mzML
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20220711_PFBBr_rawdatafiles
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035__20201216__CLIN014__MICU_076_01__dil.mzML
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036__20201215__CLIN013__MICU_032_01__dil.mzML
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036__20210212__CLIN019__MICU_199_01__dil.mzML
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038__20201217__CLIN015__MICU_132_01__dil.mzML
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042__20210429__CLIN024__MICU_288_01__dil.mzML
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20220711_PFBBr_rawdatafiles
045__20201209__CLIN009__MICU_098_01__dil.mzML
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047__20201210__CLIN010__MICU_123_01__dil.mzML
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047__20210428__CLIN023__MICU_272_01__dil.mzML
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048__20201218__CLIN016__MICU_167_01__dil.mzML
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056__20210215__CLIN020__MICU_239_01__dil.mzML
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057__20201210__CLIN010__MICU_124_01__dil.mzML
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057__20201215__CLIN013__MICU_043_01__dil.mzML
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060__20201214__CLIN012__MICU_017_01__dil.mzML
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20220711_PFBBr_rawdatafiles
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069__20201210__CLIN010__MICU_118_02__dil.mzML
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
078__20210429__CLIN024__MB__dil.mzML
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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20220711_PFBBr_rawdatafiles
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 64%|██████▍   | 1073/1674 [2:18:39<2:30:11, 14.99s/it]
 64%|██████▍   | 1074/1674 [2:18:41<1:50:52, 11.09s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Hospital admission
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Ethnicity
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_APACHE
IGNORED:  Samples_Charlson
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_BMI
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 557
Returning 549 rows!
Added 549 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5289
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS529
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific LTQ Linear Ion Trap: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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20130422_RG_OL-048.RAW/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 64%|██████▍   | 1075/1674 [2:21:43<10:20:36, 62.16s/it]
 64%|██████▍   | 1076/1674 [2:21:45<7:19:09, 44.06s/it] /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 64%|██████▍   | 1077/1674 [2:21:48<5:16:40, 31.83s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Population ID
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Type
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Country of origin
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_MFFGC accession no.
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 4038 rows!
Added 4038 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS530
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS531
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
ABA_1.wiff
FILES
RAW_FILES
ABA_2.wiff
FILES
RAW_FILES
ABA_3.wiff
FILES
RAW_FILES
ABA_4.wiff
FILES
RAW_FILES
ABA_ethylene_1.wiff
FILES
RAW_FILES
ABA_ethylene_2.wiff
FILES
RAW_FILES
ABA_ethylene_3.wiff
FILES
RAW_FILES
ABA_ethylene_4.wiff
FILES
RAW_FILES
control_1.wiff
FILES
RAW_FILES
control_2.wiff
FILES
RAW_FILES
control_3.wiff
FILES
RAW_FILES
control_4.wiff
FILES
RAW_FILES
ethylene_1.wiff
FILES
RAW_FILES
ethylene_2.wiff
FILES
RAW_FILES
ethylene_3.wiff
FILES
RAW_FILES
ethylene_4.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Hormone treatment
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS869
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS532
Request successful!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 64%|██████▍   | 1079/1674 [2:21:55<2:53:49, 17.53s/it]
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (negative): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
SAMP_B10_002.CDF
FILES
SAMP_B10_015.CDF
FILES
SAMP_B10_027.CDF
FILES
SAMP_B10_035.CDF
FILES
SAMP_B10_049.CDF
FILES
SAMP_B10_058.CDF
FILES
SAMP_B10_070.CDF
FILES
SAMP_B10_079.CDF
FILES
SAMP_B10_087.CDF
FILES
SAMP_B10_091.CDF
FILES
SAMP_B10_104.CDF
FILES
SAMP_B10_116.CDF
FILES
SAMP_B1_007.CDF
FILES
SAMP_B1_018.CDF
FILES
SAMP_B1_028.CDF
FILES
SAMP_B1_031.CDF
FILES
SAMP_B1_044.CDF
FILES
SAMP_B1_060.CDF
FILES
SAMP_B1_064.CDF
FILES
SAMP_B1_075.CDF
FILES
SAMP_B1_085.CDF
FILES
SAMP_B1_098.CDF
FILES
SAMP_B1_107.CDF
FILES
SAMP_B1_118.CDF
FILES
SAMP_B2_001.CDF
FILES
SAMP_B2_016.CDF
FILES
SAMP_B2_024.CDF
FILES
SAMP_B2_032.CDF
FILES
SAMP_B2_046.CDF
FILES
SAMP_B2_052.CDF
FILES
SAMP_B2_066.CDF
FILES
SAMP_B2_078.CDF
FILES
SAMP_B2_086.CDF
FILES
SAMP_B2_096.CDF
FILES
SAMP_B2_108.CDF
FILES
SAMP_B2_114.CDF
FILES
SAMP_B3_009.CDF
FILES
SAMP_B3_017.CDF
FILES
SAMP_B3_030.CDF
FILES
SAMP_B3_039.CDF
FILES
SAMP_B3_050.CDF
FILES
SAMP_B3_051.CDF
FILES
SAMP_B3_067.CDF
FILES
SAMP_B3_071.CDF
FILES
SAMP_B3_083.CDF
FILES
SAMP_B3_094.CDF
FILES
SAMP_B3_106.CDF
FILES
SAMP_B3_112.CDF
FILES
SAMP_B4_010.CDF
FILES
SAMP_B4_019.CDF
FILES
SAMP_B4_023.CDF
FILES
SAMP_B4_038.CDF
FILES
SAMP_B4_042.CDF
FILES
SAMP_B4_054.CDF
FILES
SAMP_B4_062.CDF
FILES
SAMP_B4_076.CDF
FILES
SAMP_B4_081.CDF
FILES
SAMP_B4_099.CDF
FILES
SAMP_B4_109.CDF
FILES
SAMP_B4_111.CDF
FILES
SAMP_B5_005.CDF
FILES
SAMP_B5_011.CDF
FILES
SAMP_B5_026.CDF
FILES
SAMP_B5_040.CDF
FILES
SAMP_B5_047.CDF
FILES
SAMP_B5_059.CDF
FILES
SAMP_B5_061.CDF
FILES
SAMP_B5_073.CDF
FILES
SAMP_B5_082.CDF
FILES
SAMP_B5_092.CDF
FILES
SAMP_B5_110.CDF
FILES
SAMP_B5_117.CDF
FILES
SAMP_B6_008.CDF
FILES
SAMP_B6_020.CDF
FILES
SAMP_B6_025.CDF
FILES
SAMP_B6_036.CDF
FILES
SAMP_B6_045.CDF
FILES
SAMP_B6_056.CDF
FILES
SAMP_B6_065.CDF
FILES
SAMP_B6_072.CDF
FILES
SAMP_B6_084.CDF
FILES
SAMP_B6_100.CDF
FILES
SAMP_B6_105.CDF
FILES
SAMP_B6_120.CDF
FILES
SAMP_B7_006.CDF
FILES
SAMP_B7_014.CDF
FILES
SAMP_B7_029.CDF
FILES
SAMP_B7_037.CDF
FILES
SAMP_B7_043.CDF
FILES
SAMP_B7_057.CDF
FILES
SAMP_B7_068.CDF
FILES
SAMP_B7_074.CDF
FILES
SAMP_B7_089.CDF
FILES
SAMP_B7_095.CDF
FILES
SAMP_B7_101.CDF
FILES
SAMP_B7_113.CDF
FILES
SAMP_B8_004.CDF
FILES
SAMP_B8_012.CDF
FILES
SAMP_B8_022.CDF
FILES
SAMP_B8_033.CDF
FILES
SAMP_B8_048.CDF
FILES
SAMP_B8_055.CDF
FILES
SAMP_B8_069.CDF
FILES
SAMP_B8_080.CDF
FILES
SAMP_B8_090.CDF
FILES
SAMP_B8_093.CDF
FILES
SAMP_B8_103.CDF
FILES
SAMP_B8_115.CDF
FILES
SAMP_B9_003.CDF
FILES
SAMP_B9_013.CDF
FILES
SAMP_B9_021.CDF
FILES
SAMP_B9_034.CDF
FILES
SAMP_B9_041.CDF
FILES
SAMP_B9_053.CDF
FILES
SAMP_B9_063.CDF
FILES
SAMP_B9_077.CDF
FILES
SAMP_B9_088.CDF
FILES
SAMP_B9_097.CDF
FILES
SAMP_B9_102.CDF
FILES
SAMP_B9_119.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Compound
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Sample dry weight
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Run order
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Dose
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 120 rows!
Added 120 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS533
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_03.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_04.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_05.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_06.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_07.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_08.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_09.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_10.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_11.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_12.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_14.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_15.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_16.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_17.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_18.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_19.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_20.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_21.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_22.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_23.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_25.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_26.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_27.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_28.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_29.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_30.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_31.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_32.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_33.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_35.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_36.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_37.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_38.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_39.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_40.mzML
FILES
Method 1
QXA10POSEAR20170601_UWIM0317VW_HUMAN_CELLS_42.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_03.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_04.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_05.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_06.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_07.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_08.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_09.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_10.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_11.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_12.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_14.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_15.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_16.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_17.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_18.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_19.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_20.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_21.mzML
FILES
Method 2
QXA10POSLAT20170601_UWIM0317VW_HUMAN_CELLS_22.mzML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.16/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 65%|██████▍   | 1081/1674 [2:22:09<1:58:41, 12.01s/it]
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Number of rows removed due to not enough metadata: 0
Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5335
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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MassSpectrometer:
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Number of rows removed due to not enough metadata: 0
Returning 110 rows!
Added 110 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5358
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 65%|██████▍   | 1083/1674 [2:22:19<1:22:59,  8.43s/it]
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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MassSpectrometer:
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IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Number of rows removed due to not enough metadata: 0
Returning 19 rows!
Added 19 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS536
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5368
Request successful!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Assay_MS Assay Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 65%|██████▍   | 1084/1674 [2:22:30<1:30:37,  9.22s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 65%|██████▍   | 1085/1674 [2:22:38<1:27:36,  8.92s/it]
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IGNORED:  Assay_Ion source
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Number of rows removed due to not enough metadata: 25
Returning 107 rows!
Added 107 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5375
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Number of rows removed due to not enough metadata: 24
Returning 35 rows!
Added 35 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS870
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS540
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5423
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS874
Request successful!
SampleCollectionMethod: ADDED!
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BDV10011-FMD-neg.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 18
Returning 177 rows!
Added 177 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS543
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5430
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Orbitrap ID-X Tribrid: missing value
UBERONBodyPartName:
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ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 164 rows!
Added 164 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS545
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7919
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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MassSpectrometer:
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FILES
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TMIC00WV_PLATE 7_Panel A.wiff
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IGNORED:  Samples_Term Source REF..
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Samples_Water content
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Source REF...2
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Source REF...1
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IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Term Accession Number...3
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Term Source REF...3
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Ion source/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 65%|██████▌   | 1093/1674 [2:23:32<1:24:47,  8.76s/it]
 65%|██████▌   | 1094/1674 [2:23:34<1:03:46,  6.60s/it]
 65%|██████▌   | 1095/1674 [2:23:35<48:15,  5.00s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 65%|██████▌   | 1096/1674 [2:23:40<47:19,  4.91s/it]
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Term Accession Number...2
Number of rows removed due to not enough metadata: 0
Returning 52 rows!
Added 52 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS547
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS876
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS549
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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20130822_SAM01716_Plasma_58h_NEG.mzML
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20130822_SAM01717_RBC_58h_NEG.mzML
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20130822_SAM01718_Blood_58h_NEG.mzML
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20130822_SAM01719_Plasma_58h_NEG.mzML
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20130822_SAM01721_Blood_58h_NEG.mzML
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20130822_SAM01723_RBC_58h_NEG.mzML
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20130822_SAM01724_Blood_58h_NEG.mzML
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20130822_SAM01725_Plasma_58h_NEG.mzML
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20130822_SAM01726_RBC_58h_NEG.mzML
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Volunteer1_plasma_34h_POS.mzML
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Volunteer2_RBC_58h_POS.mzML
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Volunteer4_RBC_58h_POS.mzML
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Volunteer4_plasma_58h_POS.mzML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS882
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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pooled_3_n.mzXML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
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IGNORED:  Samples_Term Source REF.4
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IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS552
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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IonizationSourceAndPolarity:
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ChromatographyAndPhase:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Is Organ/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 66%|██████▌   | 1098/1674 [2:23:58<1:10:37,  7.36s/it]
IGNORED:  Samples_Sample Name
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IGNORED:  Assay_Term Source REF
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Number of rows removed due to not enough metadata: 0
Returning 634 rows!
Added 634 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS553
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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Fig-S5_QQQ-Thermo_Arabidopsis_Seeds_SAIL2-2.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 83
Returning 506 rows!
Added 506 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS554
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 160 rows!
Added 160 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5572
Request successful!
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 66%|██████▌   | 1101/1674 [2:24:23<1:10:05,  7.34s/it]
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Sampling Time Post Infection
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 87 rows!
Added 87 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS89
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Q Exactive: missing value
  : missing value
IonizationSourceAndPolarity:
  : missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.19
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Number of rows removed due to not enough metadata: 0
Returning 3552 rows!
Added 3552 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS559
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SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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ZM3.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.1
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Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS560
Request successful!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5608
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS561
Request successful!
SampleCollectionMethod: ADDED!
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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 66%|██████▌   | 1109/1674 [2:26:24<58:25,  6.20s/it]
 66%|██████▋   | 1110/1674 [2:26:26<45:00,  4.79s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 66%|██████▋   | 1111/1674 [2:26:32<49:26,  5.27s/it]
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 164 rows!
Added 164 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS562
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8920
Request successful!
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Returning 128 rows!
Added 128 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5657
Request successful!
SampleCollectionMethod: ADDED!
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20200710_02_Pos_DOPAEx2_ZH04.RAW/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 510 rows!
Added 510 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8943
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS567
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Vantage: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
mtab_chisholm_tsq_ProccR1_100.raw
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FILES
mtab_chisholm_tsq_Procc_PL1_46.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 67%|██████▋   | 1114/1674 [2:26:52<54:10,  5.80s/it]
FILES
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mtab_chisholm_tsq_Procc_PL1_55.raw
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mtab_chisholm_tsq_Procc_PL1_60.raw
IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 68 rows!
Added 68 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8183
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Agilent 5977B MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Sample type
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IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 67%|██████▋   | 1115/1674 [2:27:00<59:03,  6.34s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 67%|██████▋   | 1116/1674 [2:27:05<56:28,  6.07s/it]
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 108 rows!
Added 108 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS57
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2 QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS570
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
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  : missing value
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Inflammation
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Sample type/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 67%|██████▋   | 1117/1674 [2:27:14<1:01:57,  6.67s/it]
 67%|██████▋   | 1118/1674 [2:27:15<46:21,  5.00s/it]  
IGNORED:  filepath
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 6
Returning 76 rows!
Added 76 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS571
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS574
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2 QTof: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Labeled Extract Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 67%|██████▋   | 1119/1674 [2:27:29<1:11:44,  7.76s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 67%|██████▋   | 1120/1674 [2:27:34<1:03:25,  6.87s/it]
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_phenotype ID
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_site
IGNORED:  Samples_Organism
IGNORED:  Samples_Variant
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 185 rows!
Added 185 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS575
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT HDMS System: missing value
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FILES
PB130_co1_RA2_01_1174.cdf
FILES
PB130_co1_RA2_01_1189.cdf
FILES
PB130_co2_RA3_01_1175.cdf
FILES
PB130_co2_RA3_01_1190.cdf
FILES
PB130_co3_RA4_01_1176.cdf
FILES
PB130_co3_RA4_01_1191.cdf
FILES
PB130_os1_RA8_01_1181.cdf
FILES
PB130_os1_RA8_01_1196.cdf
FILES
PB130_os2_RB1_01_1182.cdf
FILES
PB130_os2_RB1_01_1197.cdf
FILES
PB130_os3_RB2_01_1183.cdf
FILES
PB130_os3_RB2_01_1198.cdf
FILES
PB130_sesamia1_RB3_01_1184.cdf
FILES
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FILES
PB130_sesamia2_RB4_01_1185.cdf
FILES
PB130_sesamia2_RB4_01_1200.cdf
FILES
PB130_sesamia3_RB5_01_1186.cdf
FILES
PB130_sesamia3_RB5_01_1201.cdf
FILES
PB130_wound1_RA5_01_1177.cdf
FILES
PB130_wound1_RA5_01_1192.cdf
FILES
PB130_wound2_RA6_01_1178.cdf
FILES
PB130_wound2_RA6_01_1193.cdf
FILES
PB130_wound3_RA7_01_1179.cdf
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Infestation
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5762
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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UBERONBodyPartName:
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FILES
DERIVED_FILES
Lipidomics
NEG
Bp_Lipido_12h_rep1_01_NEG.mzML
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
NEG
Bp_Lipido_Blank01_NEG.mzML
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Lipidomics
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Bp_Lipido_QCconditionning01_NEG.mzML
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Bp_Lipido_QCconditionning02_NEG.mzML
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Bp_Lipido_QCconditionning03_NEG.mzML
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Bp_Lipido_QCconditionning04_NEG.mzML
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Bp_Lipido_QCconditionning05_NEG.mzML
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Bp_Lipido_QCconditionning06_NEG.mzML
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Bp_Lipido_QCconditionning08_NEG.mzML
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS577
Request successful!
SampleCollectionMethod: ADDED!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Location
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 1
Returning 73 rows!
Added 73 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS58
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS580
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 67%|██████▋   | 1125/1674 [2:28:03<48:19,  5.28s/it]
 67%|██████▋   | 1126/1674 [2:28:04<36:58,  4.05s/it]
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Shimadzu GCMS-QP2010 Ultra: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
10_Ev1.mzXML
FILES
11_Ev1.mzXML
FILES
13_Ev1.mzXML
FILES
14_Ev1.mzXML
FILES
15_Ev1.mzXML
FILES
16_Ev1.mzXML
FILES
17_Ev1.mzXML
FILES
18_Ev1.mzXML
FILES
19_Ev1.mzXML
FILES
1_Ev1.mzXML
FILES
21_Ev1.mzXML
FILES
22_Ev1.mzXML
FILES
23_Ev1.mzXML
FILES
24_Ev1.mzXML
FILES
25_Ev1.mzXML
FILES
26_Ev1.mzXML
FILES
27_Ev1.mzXML
FILES
28_Ev1.mzXML
FILES
29_Ev1.mzXML
FILES
30_Ev1.mzXML
FILES
5_Ev1.mzXML
FILES
6_Ev1.mzXML
FILES
7_Ev1.mzXML
FILES
9_Ev1.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_mycotoxins treatment
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS581
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5810
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
p2157_5038_DDA_pos_sample_28_D1.raw
FILES
p2157_5038_DDA_pos_sample_29_D2.raw
FILES
p2157_5038_DDA_pos_sample_30_D3.raw
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p2157_5038_DDA_pos_sample_32_D5.raw
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p2157_5038_DDA_pos_sample_34_E2.raw
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p2157_5038_DDA_pos_sample_35_E3.raw
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p2157_5038_DDA_pos_sample_36_E4.raw
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p2157_5038_DDA_pos_sample_37_E5.raw
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p2157_5038_DDA_pos_sample_38_F1.raw
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p2157_5038_DDA_pos_sample_39_F2.raw
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p2157_5038_DDA_pos_sample_40_F3.raw
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p2157_5038_DDA_pos_sample_41_F4.raw
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p2157_5038_DDA_pos_sample_42_F5.raw
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p2157_5038_DDA_pos_sample_43_G1.raw
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p2157_5038_DDA_pos_sample_44_G2.raw
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p2157_5038_DDA_pos_sample_45_G3.raw
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p2157_5038_DDA_pos_sample_46_G4.raw
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p2157_5038_DDA_pos_sample_48_H1.raw
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p2157_5038_DDA_pos_sample_49_H2.raw
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p2157_5038_DDA_pos_sample_50_H3.raw
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p2157_5038_DDA_pos_sample_51_H4.raw
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p2157_5038_DDA_pos_sample_52_H5.raw
FILES
p2157_5038_DDA_pos_sample_53_I1.raw
FILES
p2157_5038_DDA_pos_sample_54_I2.raw
FILES
p2157_5038_DDA_pos_sample_55_I3.raw
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p2157_5038_DDA_pos_sample_56_I4.raw
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p2157_5038_DDA_pos_sample_57_I5.raw
FILES
p2157_5038_DDA_pos_sample_58_J1.raw
FILES
p2157_5038_DDA_pos_sample_59_J2.raw
FILES
p2157_5038_DDA_pos_sample_60_J3.raw
FILES
p2157_5038_DDA_pos_sample_61_J4.raw
FILES
p2157_5038_DDA_pos_sample_62_J5.raw
FILES
p2157_5038_DDA_pos_sample_63_L1.raw
FILES
p2157_5038_DDA_pos_sample_64_L2.raw
FILES
p2157_5038_DDA_pos_sample_65_L3.raw
FILES
p2157_5038_DDA_pos_sample_pool_1.raw
FILES
p2157_5038_DDA_pos_sample_pool_2.raw
FILES
p2157_5038_DDA_pos_sample_pool_3.raw
FILES
p2157_5038_DDA_pos_sample_pool_4.raw
FILES
p2157_5038_DDA_pos_sample_pool_5.raw
FILES
p2157_5038_DDA_pos_sample_pool_6.raw
FILES
p2157_5038_DDA_pos_sample_pool_7.raw
FILES
p2157_5038_DDA_pos_sample_pool_8.raw
FILES
p2157_5038_DDA_pos_sample_pool_9.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample10_GG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample11_GGB.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample12_GGB.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample13_GGB.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample14_GGB.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample15_GGB.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample16_GGG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample17_GGG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample18_GGG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample19_GGG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample1again_CIS.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample20_GGG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample21_GO.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample22_GO.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample23_GO.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample24_GO.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample25_GO.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample26_GSR.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample27_GSR.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample28_GSR.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample29_GSR.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample2_CIS.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample30_GSR.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample31_IVG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample32_IVG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample33_IVG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample34_IVG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample35_IVG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample36_LAD.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample37_LAD.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample38_LAD.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample39_LAD.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample3_CIS.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample40_LAD.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample41_RG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample42_RG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample43_RG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample44_RG.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 67%|██████▋   | 1127/1674 [2:28:12<47:34,  5.22s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 67%|██████▋   | 1128/1674 [2:28:16<44:10,  4.86s/it]
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample45_RG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample4_CIS.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample5_CIS.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample6_GG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample7_GG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample8_GG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample9_GG.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC1.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC10.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC2.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC3.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC4.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC5.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC6.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC7.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC8.raw
FILES
sstreb_20191216_p2157_o6205_DDA_pos_1to20_sample_QC9.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Harvest Year
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Cultivar
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 102 rows!
Added 102 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS582
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Palm_ZL_01_Neg.raw
FILES
Palm_ZL_01_Pos.raw
FILES
Palm_ZL_02_Neg.raw
FILES
Palm_ZL_02_Pos.raw
FILES
Palm_ZL_03_Neg.raw
FILES
Palm_ZL_03_Pos.raw
FILES
WT_ZL_01_Neg.raw
FILES
WT_ZL_01_Pos.raw
FILES
WT_ZL_02_Neg.raw
FILES
WT_ZL_02_Pos.raw
FILES
WT_ZL_03_Neg.raw
FILES
WT_ZL_03_Pos.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_treatment
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Samples_replicate
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS584
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus HT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
B0-1_1.cdf
FILES
B0-2_1.cdf
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B0-3_1.cdf
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B0-4_1.cdf
FILES
B0-5_1.cdf
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FILES
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FILES
B0-8_1.cdf
FILES
B1-1_1.cdf
FILES
B1-2_1.cdf
FILES
B1-3_1.cdf
FILES
B1-4_1.cdf
FILES
B1-5_1.cdf
FILES
B1-6_1.cdf
FILES
B1-7_1.cdf
FILES
B1-8_1.cdf
FILES
B2-1_1.cdf
FILES
B2-2_1.cdf
FILES
B2-3_1.cdf
FILES
B2-4_1.cdf
FILES
B2-5_1.cdf
FILES
B2-6_1.cdf
FILES
B2-7_1.cdf
FILES
B2-8_1.cdf
FILES
B3-1_1.cdf
FILES
B3-2_1.cdf
FILES
B3-3_1.cdf
FILES
B3-4_1.cdf
FILES
B3-5_1.cdf
FILES
B3-6_1.cdf
FILES
B3-7_1.cdf
FILES
B3-8_1.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Time point
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 67%|██████▋   | 1129/1674 [2:28:21<45:01,  4.96s/it]
 68%|██████▊   | 1130/1674 [2:28:23<36:44,  4.05s/it]
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 68%|██████▊   | 1135/1674 [2:28:45<48:57,  5.45s/it]
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS586
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS587
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5877
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS588
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS896
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS59
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Spiking
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 80 rows!
Added 80 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8966
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Agilent 5975C VL MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
  nan: missing value
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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RAW_FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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Number of rows removed due to not enough metadata: 0
Returning 40 rows!
Added 40 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS899
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
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FILES
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TC2.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 68%|██████▊   | 1137/1674 [2:29:00<59:42,  6.67s/it]
 68%|██████▊   | 1138/1674 [2:29:01<45:34,  5.10s/it]
 68%|██████▊   | 1139/1674 [2:29:03<37:40,  4.22s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 68%|██████▊   | 1140/1674 [2:29:08<39:15,  4.41s/it]
FILES
TC3.raw
FILES
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TG3.raw
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UA1.raw
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UC1.raw
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UE1.raw
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UN1.raw
FILES
UN2.raw
FILES
UN3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Taurine 15N Labeling
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Exogenous SBPase
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Infection Status
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Media Taurine Abundance
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Lysate Treatment
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Glucose-6-13C Labeling
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Samples_SBPase Expression in Lysate
IGNORED:  Is Organ
IGNORED:  Samples_Exogenous BFP
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 238 rows!
Added 238 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS593
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5943
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS596
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap XL: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
MSMS_PestCar16-52.mzXML
FILES
PestCar16-02.cdf
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 40 rows!
Added 40 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS597
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  : missing value
  Thermo Scientific Orbitrap Elite: missing value
IonizationSourceAndPolarity:
   (negative): missing value
   (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CID_MSMS_409.raw
FILES
CID_MSMS_437.raw
FILES
CID_MSMS_697.raw
FILES
CID_MSMS_748.raw
FILES
CID_MSMS_776.raw
FILES
CID_MSMS_780.raw
FILES
CID_MSMS_782.raw
FILES
CID_MSMS_792.raw
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 68%|██████▊   | 1141/1674 [2:29:17<50:25,  5.68s/it]
CID_MSMS_806.raw
FILES
CID_MSMS_810.raw
FILES
CID_MSMS_826.raw
FILES
CID_MSMS_844.raw
FILES
CID_MSMS_PC_Lipids.raw
FILES
CID_MSMS_Validation_1.raw
FILES
CID_MSMS_Validation_10.raw
FILES
CID_MSMS_Validation_11.raw
FILES
CID_MSMS_Validation_2.raw
FILES
CID_MSMS_Validation_3.raw
FILES
CID_MSMS_Validation_4.raw
FILES
CID_MSMS_Validation_5.raw
FILES
CID_MSMS_Validation_6.raw
FILES
CID_MSMS_Validation_7.raw
FILES
CID_MSMS_Validation_8.raw
FILES
CID_MSMS_Validation_9.raw
FILES
PA 160 181_standardMSMS.raw
FILES
PC 160 181_standardMSMS.raw
FILES
PE 160 181_standardMSMS1.raw
FILES
PG 160 181standardMSMS.raw
FILES
PI 160_160_standardMSMS.raw
FILES
PS 160 181_standardMSMS.raw
FILES
intestine_neg1.raw
FILES
intestine_neg2.raw
FILES
intestine_neg3.raw
FILES
intestine_pos1.raw
FILES
intestine_pos2.raw
FILES
intestine_pos3.raw
FILES
neg_1.raw
FILES
neg_2.raw
FILES
neg_3.raw
FILES
pos_1.raw
FILES
pos_2.raw
FILES
pos_3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Stain
IGNORED:  Assay_Max dimension x
IGNORED:  Assay_Term Source REF.23
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Assay_Term Source REF.29
IGNORED:  Assay_MALDI matrix application other
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Term Accession Number.23
IGNORED:  Assay_Term Accession Number.42
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.39
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Accession Number.28
IGNORED:  Assay_Linescan sequence
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Term Accession Number.21
IGNORED:  Assay_Target material
IGNORED:  Assay_Term Accession Number.45
IGNORED:  Assay_MALDI matrix other
IGNORED:  Assay_Term Source REF.35
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Term Accession Number.34
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.46
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Accession Number.30
IGNORED:  Assay_Tissue modification
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Unit.3
IGNORED:  Assay_Term Accession Number.39
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Unit.2
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Source REF.28
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Term Accession Number.46
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Term Accession Number.24
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Species
IGNORED:  Assay_Term Source REF.10
IGNORED:  Assay_High-res image
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  Assay_MALDI matrix
IGNORED:  base
IGNORED:  Assay_Max dimension y
IGNORED:  Assay_Term Source REF.30
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Sectioning instrument
IGNORED:  Assay_Pixel size x
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Assay_Term Source REF.24
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Term Source REF.37
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_MALDI matrix application
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Resolving power
IGNORED:  Assay_Unit.5
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Accession Number.41
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.40
IGNORED:  Assay_Scan type
IGNORED:  Assay_Term Source REF.21
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Source REF.26
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Sample stabilisation
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Term Accession Number.35
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Source REF.45
IGNORED:  Assay_Term Accession Number.44
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Term Accession Number.27
IGNORED:  Assay_Term Source REF.27
IGNORED:  Assay_Term Source REF.33
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Term Source REF.42
IGNORED:  Assay_Term Source REF.20
IGNORED:  Assay_Low-res image
IGNORED:  Assay_Term Source REF.43
IGNORED:  Assay_Alpha-tester
IGNORED:  keep
IGNORED:  Assay_Line scan direction
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Metabolite database other
IGNORED:  Assay_Max count of pixel x
IGNORED:  Assay_Scan pattern
IGNORED:  Assay_Term Accession Number.22
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.47
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Term Source REF.41
IGNORED:  Assay_Sample preservation
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Term Accession Number.38
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Term Accession Number.25
IGNORED:  Assay_Instrument software version
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Section thickness
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Term Accession Number.29
IGNORED:  Assay_Term Source REF.32
IGNORED:  Assay_Term Accession Number.32
IGNORED:  Assay_Protocol REF.4
IGNORED:  Assay_Term Accession Number.43
IGNORED:  Assay_Term Accession Number.31
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Assay_Term Source REF.25
IGNORED:  Assay_Term Source REF.40
IGNORED:  Assay_Term Source REF.31
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Assay_Term Source REF.44
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Term Accession Number.33
IGNORED:  Assay_Term Source REF.36
IGNORED:  Assay_Term Source REF.15
IGNORED:  Assay_Solvent
IGNORED:  Assay_Pixel size y
IGNORED:  Assay_Spectrum representation
IGNORED:  filename_lower
IGNORED:  Assay_Term Source REF.38
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Term Accession Number.37
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Metabolite database
IGNORED:  Assay_Term Source REF.22
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Tissue modification other
IGNORED:  Assay_Term Accession Number.17
IGNORED:  Assay_Spatial resolution
IGNORED:  Samples_Sample type
IGNORED:  Assay_Sample stabilisation other
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Source REF.34
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Accession Number.36
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Term Accession Number.47
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Accession Number.26
Number of rows removed due to not enough metadata: 6
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS599
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 68%|██████▊   | 1142/1674 [2:29:21<47:51,  5.40s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 68%|██████▊   | 1143/1674 [2:29:29<53:16,  6.02s/it]
MassSpectrometer:
  Agilent 6540 Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
13-desmethylspirolide-C-50.mzXML
FILES
AZA-1,2,3-50.mzXML
FILES
AZA-10-50.mzXML
FILES
AZA-26-50.mzXML
FILES
AZA-33-50.mzXML
FILES
AZA-34-50.mzXML
FILES
AZA-4-50.mzXML
FILES
AZA-5-50.mzXML
FILES
AZA-6-50.mzXML
FILES
AZA-7-50.mzXML
FILES
AZA-8-50.mzXML
FILES
AZA-9-50.mzXML
FILES
Gambierone-50.mzXML
FILES
MTX-3-50.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 14 rows!
Added 14 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
APC_BSTFA1_1.CDF
FILES
APC_BSTFA1_2.CDF
FILES
APC_BSTFA1_3.CDF
FILES
APC_BSTFA2_1.CDF
FILES
APC_BSTFA2_2.CDF
FILES
APC_BSTFA2_3.CDF
FILES
APC_BSTFA3_1.CDF
FILES
APC_BSTFA3_2.CDF
FILES
APC_BSTFA3_3.CDF
FILES
APC_BSTFA4_1.CDF
FILES
APC_BSTFA4_2.CDF
FILES
APC_BSTFA4_3.CDF
FILES
APC_BSTFA5_1.CDF
FILES
APC_BSTFA5_2.CDF
FILES
APC_BSTFA5_3.CDF
FILES
APC_BSTFA6_1.CDF
FILES
APC_BSTFA6_2.CDF
FILES
APC_BSTFA6_3.CDF
FILES
gc01_0812_066.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Spike in volume
IGNORED:  Samples_Skewing
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Threshold
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Min Number Ions
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Relative Intensity
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Retention Time Modulation
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Samples_Gap Penalty
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Window
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Sample type_1
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 1
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS600
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6520 Q-TOF: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
MAM03.mzML
FILES
MAM04.mzML
FILES
MAM07.mzML
FILES
MAM08.mzML
FILES
MAM11.mzML
FILES
MAM12.mzML
FILES
MAM15.mzML
FILES
MAM16.mzML
FILES
MAM19.mzML
FILES
MIT03.mzML
FILES
MIT04.mzML
FILES
MIT07.mzML
FILES
MIT08.mzML
FILES
MIT11.mzML
FILES
MIT12.mzML
FILES
MIT15.mzML
FILES
MIT16.mzML
FILES
MIT19.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 68%|██████▊   | 1144/1674 [2:29:36<56:12,  6.36s/it]
 68%|██████▊   | 1145/1674 [2:29:40<49:37,  5.63s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 68%|██████▊   | 1146/1674 [2:29:45<48:34,  5.52s/it]
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Genotype Mfn2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS602
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9074
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
neg_PR_1.wiff
FILES
RAW_FILES
NEG
neg_PR_2.wiff
FILES
RAW_FILES
NEG
neg_PR_3.wiff
FILES
RAW_FILES
NEG
neg_PR_4.wiff
FILES
RAW_FILES
NEG
neg_PR_5.wiff
FILES
RAW_FILES
NEG
neg_PR_6.wiff
FILES
RAW_FILES
NEG
neg_QC1.wiff
FILES
RAW_FILES
NEG
neg_QC2.wiff
FILES
RAW_FILES
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FILES
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neg_QC4.wiff
FILES
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neg_QC5.wiff
FILES
RAW_FILES
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neg_QC6.wiff
FILES
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FILES
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neg_WT_1.wiff
FILES
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neg_WT_2.wiff
FILES
RAW_FILES
NEG
neg_WT_3.wiff
FILES
RAW_FILES
NEG
neg_WT_4.wiff
FILES
RAW_FILES
NEG
neg_WT_5.wiff
FILES
RAW_FILES
NEG
neg_WT_6.wiff
FILES
RAW_FILES
POS
pos_PR_1.wiff
FILES
RAW_FILES
POS
pos_PR_2.wiff
FILES
RAW_FILES
POS
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FILES
RAW_FILES
POS
pos_PR_4.wiff
FILES
RAW_FILES
POS
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FILES
RAW_FILES
POS
pos_PR_6.wiff
FILES
RAW_FILES
POS
pos_QC1.wiff
FILES
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POS
pos_QC2.wiff
FILES
RAW_FILES
POS
pos_QC3.wiff
FILES
RAW_FILES
POS
pos_QC4.wiff
FILES
RAW_FILES
POS
pos_QC5.wiff
FILES
RAW_FILES
POS
pos_QC6.wiff
FILES
RAW_FILES
POS
pos_QC7.wiff
FILES
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POS
pos_WT_1.wiff
FILES
RAW_FILES
POS
pos_WT_2.wiff
FILES
RAW_FILES
POS
pos_WT_3.wiff
FILES
RAW_FILES
POS
pos_WT_4.wiff
FILES
RAW_FILES
POS
pos_WT_5.wiff
FILES
RAW_FILES
POS
pos_WT_6.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7943
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
pd neg 1.wiff
FILES
RAW_FILES
NEG
pd neg 2.wiff
FILES
RAW_FILES
NEG
pd neg 3.wiff
FILES
RAW_FILES
NEG
pd neg vehicle 1.wiff
FILES
RAW_FILES
NEG
pd neg vehicle 2.wiff
FILES
RAW_FILES
NEG
pd neg vehicle 3.wiff
FILES
RAW_FILES
POS
pd pos 1.wiff
FILES
RAW_FILES
POS
pd pos 2.wiff
FILES
RAW_FILES
POS
pd pos 3.wiff
FILES
RAW_FILES
POS
pd pos vehicle 1.wiff
FILES
RAW_FILES
POS
pd pos vehicle 2.wiff
FILES
RAW_FILES
POS
pd pos vehicle 3.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▊   | 1147/1674 [2:29:50<47:01,  5.35s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▊   | 1148/1674 [2:29:56<47:04,  5.37s/it]
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6073
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 120: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NEG
NEG-HO1_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-HO2_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-HO3_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-HO4_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-HO5_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-HO6_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-MO1_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-MO2_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-MO3_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-MO4_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-MO6_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-MO7_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-NO1_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-NO2_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-NO3_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-NO4_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-NO5_1.mzXML
FILES
DERIVED_FILES
NEG
NEG-NO6_1.mzXML
FILES
DERIVED_FILES
POS
POS-HO1_1.mzXML
FILES
DERIVED_FILES
POS
POS-HO2_1.mzXML
FILES
DERIVED_FILES
POS
POS-HO3_1.mzXML
FILES
DERIVED_FILES
POS
POS-HO4_1.mzXML
FILES
DERIVED_FILES
POS
POS-HO5_1.mzXML
FILES
DERIVED_FILES
POS
POS-HO6_1.mzXML
FILES
DERIVED_FILES
POS
POS-MO1_1.mzXML
FILES
DERIVED_FILES
POS
POS-MO2_1.mzXML
FILES
DERIVED_FILES
POS
POS-MO3_1.mzXML
FILES
DERIVED_FILES
POS
POS-MO4_1.mzXML
FILES
DERIVED_FILES
POS
POS-MO6_1.mzXML
FILES
DERIVED_FILES
POS
POS-MO7_1.mzXML
FILES
DERIVED_FILES
POS
POS-NO2_1.mzXML
FILES
DERIVED_FILES
POS
POS-NO5_1.mzXML
FILES
DERIVED_FILES
POS
POS-NO6_1.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 33 rows!
Added 33 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6075
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 4500: missing value
  Bruker timsTOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
DS1-1.mzML
FILES
DERIVED_FILES
DS1-2.mzML
FILES
DERIVED_FILES
DS1-3.mzML
FILES
DERIVED_FILES
DS1-4.mzML
FILES
DERIVED_FILES
DS2-1.mzML
FILES
DERIVED_FILES
DS2-2.mzML
FILES
DERIVED_FILES
DS2-3.mzML
FILES
DERIVED_FILES
DS2-4.mzML
FILES
DERIVED_FILES
DS2-5.mzML
FILES
DERIVED_FILES
DS3-1.mzML
FILES
DERIVED_FILES
DS3-10.mzML
FILES
DERIVED_FILES
DS3-11.mzML
FILES
DERIVED_FILES
DS3-12.mzML
FILES
DERIVED_FILES
DS3-13.mzML
FILES
DERIVED_FILES
DS3-14.mzML
FILES
DERIVED_FILES
DS3-2.mzML
FILES
DERIVED_FILES
DS3-3.mzML
FILES
DERIVED_FILES
DS3-4.mzML
FILES
DERIVED_FILES
DS3-5.mzML
FILES
DERIVED_FILES
DS3-6.mzML
FILES
DERIVED_FILES
DS3-7.mzML
FILES
DERIVED_FILES
DS3-8.mzML
FILES
DERIVED_FILES
DS3-9.mzML
FILES
DERIVED_FILES
DS4-1-1.mzML
FILES
DERIVED_FILES
DS4-1-2.mzML
FILES
DERIVED_FILES
DS4-1-3.mzML
FILES
DERIVED_FILES
DS4-1-4.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Dataset
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▊   | 1149/1674 [2:30:00<45:11,  5.16s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▊   | 1150/1674 [2:30:07<49:21,  5.65s/it]
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6076
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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17.mzML
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18.mzML
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19.mzML
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 9 rows!
Added 9 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS608
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
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qiita_sample_name: ADDED!
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ChromatographyAndPhase:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▉   | 1151/1674 [2:30:18<1:02:38,  7.19s/it]
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  base
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Metabolome
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 156 rows!
Added 156 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9087
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▉   | 1152/1674 [2:30:26<1:05:00,  7.47s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 176 rows!
Added 176 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS612
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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Number of rows removed due to not enough metadata: 0
Returning 20 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS614
Request successful!
SampleCollectionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▉   | 1154/1674 [2:30:38<58:16,  6.72s/it]  
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Orbitrap Elite: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9119
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▉   | 1155/1674 [2:30:44<55:33,  6.42s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▉   | 1156/1674 [2:30:50<55:42,  6.45s/it]
 69%|██████▉   | 1157/1674 [2:30:52<42:32,  4.94s/it]
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Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS616
Request successful!
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Returning 118 rows!
Added 118 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS618
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9134
Request successful!
SampleCollectionMethod: ADDED!
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C30_POS-C30.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▉   | 1158/1674 [2:30:57<44:12,  5.14s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 69%|██████▉   | 1159/1674 [2:31:02<41:49,  4.87s/it]
FILES
DERIVED_FILES
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D31_POS-D31.mzXML
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Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9136
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS62
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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20130430_VP+ve_085.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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FILES
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Number of rows removed due to not enough metadata: 0
Returning 4067 rows!
Added 4067 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6212
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS622
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS623
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS624
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SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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DOIDCommonName: ADDED!
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Country: ADDED!
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DepthorAltitudeMeters: ADDED!
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UnlabPro_686_pos.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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Number of rows removed due to not enough metadata: 29
Returning 110 rows!
Added 110 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6249
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Mass analyzer/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 70%|██████▉   | 1165/1674 [2:34:32<2:05:12, 14.76s/it]
 70%|██████▉   | 1166/1674 [2:34:34<1:32:20, 10.91s/it]
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 70%|██████▉   | 1168/1674 [2:34:43<1:06:53,  7.93s/it]
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 104 rows!
Added 104 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS626
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6267
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6279
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
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MassSpectrometer:
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ENVOEnvironmentBiome:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Assay_Autosampler model
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Number of rows removed due to not enough metadata: 0
Returning 78 rows!
Added 78 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS63
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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20130430_VP-ve_081.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 70%|██████▉   | 1169/1674 [2:37:45<8:25:03, 60.01s/it]
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IGNORED:  Assay_Term Accession Number
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Population ID
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Type
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Country of origin
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_MFFGC accession no.
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
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Number of rows removed due to not enough metadata: 0
Returning 4047 rows!
Added 4047 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8122
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion Lumos Tribrid: missing value
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Bottle
IGNORED:  Samples_Depth
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 70%|██████▉   | 1170/1674 [2:37:49<6:03:26, 43.27s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 34 rows!
Added 17 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS630
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
4_LA_PAK-1-4-C.mzML
FILES
4_LA_PAK-2-4-C.mzML
FILES
4_LA_PAK-3-4-C.mzML
FILES
5_LA_PAK-1-4-P.mzML
FILES
5_LA_PAK-2-4-P.mzML
FILES
5_LA_PAK-3-4-P.mzML
FILES
C0_3.mzML
FILES
C0_4.mzML
FILES
C0_5.mzML
FILES
C0_6.mzML
FILES
C1_3.mzML
FILES
C1_4.mzML
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C1_5.mzML
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C1_6.mzML
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PAK-1-1.mzML
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PAK-2-1.mzML
FILES
PAK-3-1.mzML
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PAK-4-1.mzML
FILES
PAK-5-1.mzML
FILES
PB0_3.mzML
FILES
PB0_4.mzML
FILES
PB0_5.mzML
FILES
PB0_6.mzML
FILES
PB1_3.mzML
FILES
PB1_4.mzML
FILES
PB1_5.mzML
FILES
PB1_6.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
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IGNORED:  extension
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IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Presence of polymyxin
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS633
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6331
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS636
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Velos Pro: missing value
ENVOEnvironmentBiome:
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FILES
A431_1.raw
FILES
A431_2.raw
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A431_3.raw
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A549_1.raw
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A549_2.raw
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A549_3.raw
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A549_4.raw
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Arabidopsis_Leaf_1.raw
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Arabidopsis_Leaf_2.raw
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Arabidopsis_Leaf_3.raw
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Arabidopsis_Seeds_1.raw
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Arabidopsis_Seeds_2.raw
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Arabidopsis_Seeds_3.raw
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Aspergillus_+Fe_1.raw
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Aspergillus_+Fe_2.raw
FILES
Aspergillus_+Fe_3.raw
FILES
Aspergillus_-Fe_1.raw
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Aspergillus_-Fe_2.raw
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Aspergillus_-Fe_3.raw
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Bacillus_1.raw
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Bacillus_2.raw
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Bacillus_3.raw
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CHO-K1_1.raw
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CHO-K1_2.raw
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CHO-K1_3.raw
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CHO-K1_4.raw
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CaCo2_1.raw
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CaCo2_2.raw
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Drosophila_female_1.raw
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Drosophila_female_2.raw
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Drosophila_female_3.raw
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Drosophila_male_1.raw
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Drosophila_male_2.raw
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Drosophila_male_3.raw
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E-coli_LB_1.raw
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E-coli_LB_2.raw
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E-coli_LB_3.raw
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E-coli_M9_1.raw
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E-coli_M9_2.raw
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E-coli_M9_3.raw
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HEK_1.raw
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HEK_2.raw
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HEK_3.raw
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HL60_1.raw
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HL60_2.raw
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HL60_3.raw
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HL60_4.raw
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HeLa_Exp1_DMEM_1.raw
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HeLa_Exp1_DMEM_2.raw
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HeLa_Exp1_DMEM_3.raw
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HeLa_Exp1_DMEM_4.raw
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HeLa_Exp1_Heart_1.raw
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HeLa_Exp1_Heart_2.raw
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HeLa_Exp1_control_1.raw
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HeLa_Exp1_control_2.raw
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HeLa_Exp2_Heart_1.raw
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HeLa_Exp2_Heart_3.raw
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HeLa_Exp3_control_1.raw
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HeLa_Exp3_control_2.raw
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HeLa_Exp3_control_3.raw
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HeLa_Exp3_control_4.raw
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HeLa_Exp4_Heart_1.raw
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HeLa_Exp4_Heart_2.raw
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HeLa_Exp4_Heart_3.raw
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HeLa_Exp4_Heart_4.raw
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HeLa_Exp4_control_1.raw
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HeLa_Exp4_control_2.raw
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HeLa_Exp4_control_3.raw
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HeLa_Exp4_control_4.raw
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Jurkat_1.raw
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Jurkat_2.raw
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Jurkat_3.raw
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K562_1.raw
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K562_2.raw
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K562_3.raw
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K562_4.raw
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MCF7_2.raw
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Micrococcus_1.raw
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Molt4_1.raw
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Molt4_4.raw
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Mouse_Cerebrum_1.raw
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Mouse_Cerebrum_2.raw
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Mouse_Cerebrum_3.raw
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Mouse_Heart_1.raw
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Mouse_Heart_2.raw
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Mouse_Heart_3.raw
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Mouse_Liver_1.raw
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Mouse_Liver_3.raw
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Oryza_1.raw
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Oryza_2.raw
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Oryza_3.raw
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Pig_Brain_1.raw
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Pig_Brain_2.raw
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Pig_Brain_3.raw
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Pig_Heart_1.raw
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Pig_Heart_2.raw
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Pig_Liver_1.raw
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Pig_Liver_3.raw
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Pseudomonas_1.raw
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Pseudomonas_2.raw
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Pseudomonas_3.raw
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RAW_200pmol_1.raw
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 70%|███████   | 1174/1674 [2:38:10<2:08:24, 15.41s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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RAW_200pmol_2.raw
FILES
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RAW_50pmol_2.raw
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RAW_50pmol_3.raw
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RAW_Buffer_1.raw
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RAW_Buffer_2.raw
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RAW_VAL_POOL_2.raw
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RAW_VAL_POOL_3.raw
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RAW_VAL_POOL_5.raw
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RAW_VAL_POOL_6.raw
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RAW_VAL_POOL_7.raw
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RAW_Val_1.raw
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RAW_Val_10.raw
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RAW_Val_6.raw
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RAW_Val_week1_1.raw
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T24_1.raw
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T24_3.raw
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T24_4.raw
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THP-1_1.raw
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U937_2.raw
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Yeast_OD=5.9_1.raw
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Yeast_OD=5.9_2.raw
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Yeast_OD=5.9_3.raw
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Yeast_OD=5.9_4.raw
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Zebrafish_3dy+_1.raw
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Zebrafish_3dy+_2.raw
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Zebrafish_3dy+_3.raw
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Zebrafish_Body_1.raw
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Zebrafish_Body_2.raw
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Zebrafish_Body_3.raw
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Zebrafish_Head_1.raw
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Zebrafish_Head_2.raw
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Zebrafish_Head_3.raw
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Zebrafish_Tail_2.raw
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Zebrafish_Tail_3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 13
Returning 226 rows!
Added 226 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6366
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX TripleTOF 4600: missing value
UBERONBodyPartName:
  : missing value
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FILES
RAW_FILES
metabolomic
POS
DataQC11.wiff
FILES
RAW_FILES
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POS
DataQC12.wiff
FILES
RAW_FILES
metabolomic
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DataQC18.wiff
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RAW_FILES
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DataQC19.wiff
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DataQC21.wiff
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DataQC22.wiff
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RAW_FILES
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RAW_FILES
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DataQC24.wiff
FILES
RAW_FILES
metabolomic
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DataQC27.wiff
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RAW_FILES
metabolomic
POS
DataQC28.wiff
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RAW_FILES
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DataQC29.wiff
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RAW_FILES
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metabolomic
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Samples_Organism part
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 23 rows!
Added 23 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9273
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 70%|███████   | 1176/1674 [2:38:19<1:22:35,  9.95s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 70%|███████   | 1177/1674 [2:38:24<1:09:51,  8.43s/it]
 70%|███████   | 1178/1674 [2:38:26<52:13,  6.32s/it]  
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 120: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
neg_C1.raw
FILES
neg_C2.raw
FILES
neg_C3.raw
FILES
neg_C4.raw
FILES
neg_CQ1.raw
FILES
neg_CQ2.raw
FILES
neg_CQ3.raw
FILES
neg_CQ4.raw
FILES
pos_C1.raw
FILES
pos_C2.raw
FILES
pos_C3.raw
FILES
pos_C4.raw
FILES
pos_CQ1.raw
FILES
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FILES
pos_CQ3.raw
FILES
pos_CQ4.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Chloroquine
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9293
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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NEG
n11.wiff
FILES
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n12.wiff
FILES
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n13.wiff
FILES
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nrtqc1.wiff
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prtqc1.wiff
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 19 rows!
Added 19 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS640
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS641
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600+: missing value
FILES
Curva_HQC-1.wiff
FILES
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FILES
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FILES
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Curva_Ponto_1-1.wiff
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FILES
Curva_Ponto_2-10.wiff
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FILES
Curva_Ponto_2-3.wiff
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Curva_Ponto_2-5.wiff
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Curva_Ponto_2-6.wiff
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Curva_Ponto_2-7.wiff
FILES
Curva_Ponto_2-8.wiff
FILES
Curva_Ponto_2-9.wiff
FILES
Curva_Ponto_3-1.wiff/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 70%|███████   | 1179/1674 [2:38:31<50:29,  6.12s/it]
FILES
Curva_Ponto_3-10.wiff
FILES
Curva_Ponto_3-2.wiff
FILES
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FILES
Curva_Ponto_3-4.wiff
FILES
Curva_Ponto_3-5.wiff
FILES
Curva_Ponto_3-6.wiff
FILES
Curva_Ponto_3-7.wiff
FILES
Curva_Ponto_3-8.wiff
FILES
Curva_Ponto_3-9.wiff
FILES
Curva_Ponto_4-1.wiff
FILES
Curva_Ponto_4-10.wiff
FILES
Curva_Ponto_4-2.wiff
FILES
Curva_Ponto_4-3.wiff
FILES
Curva_Ponto_4-4.wiff
FILES
Curva_Ponto_4-5.wiff
FILES
Curva_Ponto_4-6.wiff
FILES
Curva_Ponto_4-7.wiff
FILES
Curva_Ponto_4-8.wiff
FILES
Curva_Ponto_4-9.wiff
FILES
Curva_Ponto_5-1.wiff
FILES
Curva_Ponto_5-10.wiff
FILES
Curva_Ponto_5-2.wiff
FILES
Curva_Ponto_5-3.wiff
FILES
Curva_Ponto_5-4.wiff
FILES
Curva_Ponto_5-5.wiff
FILES
Curva_Ponto_5-6.wiff
FILES
Curva_Ponto_5-7.wiff
FILES
Curva_Ponto_5-8.wiff
FILES
Curva_Ponto_5-9.wiff
FILES
Curva_Ponto_6-1.wiff
FILES
Curva_Ponto_6-10.wiff
FILES
Curva_Ponto_6-2.wiff
FILES
Curva_Ponto_6-3.wiff
FILES
Curva_Ponto_6-4.wiff
FILES
Curva_Ponto_6-5.wiff
FILES
Curva_Ponto_6-6.wiff
FILES
Curva_Ponto_6-7b.wiff
FILES
Curva_Ponto_6-8.wiff
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Curva_Ponto_6-9.wiff
FILES
Curva_Ponto_7-1.wiff
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Curva_Ponto_7-10.wiff
FILES
Curva_Ponto_7-2.wiff
FILES
Curva_Ponto_7-3.wiff
FILES
Curva_Ponto_7-4.wiff
FILES
Curva_Ponto_7-5.wiff
FILES
Curva_Ponto_7-6.wiff
FILES
Curva_Ponto_7-7.wiff
FILES
Curva_Ponto_7-8.wiff
FILES
Curva_Ponto_7-9.wiff
FILES
Curva_Ponto_8-1.wiff
FILES
Curva_Ponto_8-10.wiff
FILES
Curva_Ponto_8-2.wiff
FILES
Curva_Ponto_8-3.wiff
FILES
Curva_Ponto_8-4.wiff
FILES
Curva_Ponto_8-5.wiff
FILES
Curva_Ponto_8-6.wiff
FILES
Curva_Ponto_8-7.wiff
FILES
Curva_Ponto_8-8.wiff
FILES
Curva_Ponto_8-9.wiff
FILES
Curva_Ponto_9-1.wiff
FILES
Curva_Ponto_9-10.wiff
FILES
Curva_Ponto_9-2.wiff
FILES
Curva_Ponto_9-3.wiff
FILES
Curva_Ponto_9-4.wiff
FILES
Curva_Ponto_9-5.wiff
FILES
Curva_Ponto_9-6.wiff
FILES
Curva_Ponto_9-7.wiff
FILES
Curva_Ponto_9-8.wiff
FILES
Curva_Ponto_9-9.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Total mass injected
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 121
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9306
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Focus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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NEG
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 70%|███████   | 1180/1674 [2:38:37<49:27,  6.01s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 71%|███████   | 1181/1674 [2:38:41<45:01,  5.48s/it]
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Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6458
Request successful!
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Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS65
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Population ID
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Type
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 71%|███████   | 1182/1674 [2:41:51<8:18:14, 60.76s/it]
IGNORED:  Is Organ
IGNORED:  Samples_Country of origin
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_MFFGC accession no.
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 4136 rows!
Added 4136 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6511
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Orbitrap ID-X Tribrid: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 71%|███████   | 1183/1674 [2:42:01<6:12:09, 45.48s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 71%|███████   | 1184/1674 [2:42:07<4:36:06, 33.81s/it]
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
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Number of rows removed due to not enough metadata: 0
Returning 133 rows!
Added 133 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS652
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES
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FILES
Infected_02122018_PJ_B.raw
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MRCF5_Mock_C_020718_lipid.raw
FILES
NC1_HCMV_1.raw
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NC1_HCMV_2.raw
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NC1_HCMV_3.raw
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NC1_Mock_1.raw
FILES
NC1_Mock_2.raw
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PEX11-2_HCMV_1.raw
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PEX3-3_HCMV_1.raw
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PEX3-3_Mock_1.raw
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PEX3-3_Mock_3.raw
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
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Number of rows removed due to not enough metadata: 0
Returning 23 rows!
Added 23 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS653
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Agilent 5975C inert XL MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
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  : missing value
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FILES
PARIS_TMS_S15J0.mzML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 71%|███████   | 1185/1674 [2:42:15<3:32:13, 26.04s/it]
 71%|███████   | 1186/1674 [2:42:18<2:33:42, 18.90s/it]
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 53 rows!
Added 53 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS656
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6578
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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FILES
20210309_ID_SW_RP_S12_P2_KO2_Knaus_65.raw
FILES
20210309_ID_SW_RP_S20_E_KO2_Knaus_66.raw
FILES
20210309_ID_SW_RP_S4_P40_KO2_Knaus_64.raw
FILES
20210309_QC_ALL_R01_FMS_SW_RP_Knaus_21.raw
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20210309_QC_ALL_R02_FMS_SW_RP_Knaus_27.raw
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20210309_QC_ALL_R03_FMS_SW_RP_Knaus_33.raw
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20210309_QC_ALL_R04_FMS_SW_RP_Knaus_39.raw
FILES
20210309_QC_ALL_R05_FMS_SW_RP_Knaus_45.raw
FILES
20210309_QC_ALL_R06_FMS_SW_RP_Knaus_51.raw
FILES
20210309_QC_ALL_R07_FMS_SW_RP_Knaus_57.raw
FILES
20210309_QC_ALL_T01_ID_SW_RP_Knaus_09.raw
FILES
20210309_QC_ALL_T02_ID_SW_RP_Knaus_10.raw
FILES
20210309_QC_ALL_T03_ID_SW_RP_Knaus_11.raw
FILES
20210309_QC_ALL_T04_ID_SW_RP_Knaus_12.raw
FILES
20210309_QC_ALL_T05_ID_SW_RP_Knaus_13.raw
FILES
20210309_QC_ALL_T06_ID_SW_RP_Knaus_61.raw
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Timecourse
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 141 rows!
Added 141 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS658
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS66
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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20130718_NP+ve_021.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Population ID
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Type
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Country of origin
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_MFFGC accession no
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Replicate
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 3950 rows!
Added 3950 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS850
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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QXA15POSEAR20210129_CHHB0220DSML_HUMAN_PLASMA10_06.mzML
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QXA15POSEAR20210129_CHHB0220DSML_HUMAN_PLASMA10_30.mzML
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QXA15POSLAT20210222_CHHB0220DSML_HUMAN_PLASMA1_19.mzML
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QXA20NEG20210129_CHHB0220DSML_HUMAN_PLASMA10_06.mzML
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QXA20NEG20210129_CHHB0220DSML_HUMAN_PLASMA10_30.mzML
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QXA20NEG20210201_CHHB0220DSML_HUMAN_PLASMA11_41.mzML
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QXA20NEG20210201_CHHB0220DSML_HUMAN_PLASMA12_35.mzML
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QXA20NEG20210201_CHHB0220DSML_HUMAN_PLASMA13_14.mzML
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QXA20NEG20210201_CHHB0220DSML_HUMAN_PLASMA13_41.mzML
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QXA20NEG20210201_CHHB0220DSML_HUMAN_PLASMA14_39.mzML
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22859
22859 Method 3
QXA20NEG20210210_CHHB0220DSML_HUMAN_PLASMA1_09.mzML
FILES
22859
22859 Method 3
QXA20NEG20210210_CHHB0220DSML_HUMAN_PLASMA1_19.mzML
FILES
22859
22859 Method 3
QXA20NEG20210210_CHHB0220DSML_HUMAN_PLASMA2_09.mzML
FILES
22859
22859 Method 3
QXA20NEG20210210_CHHB0220DSML_HUMAN_PLASMA3_27.mzML
FILES
22859
22859 Method 3
QXA20NEG20210210_CHHB0220DSML_HUMAN_PLASMA4_31.mzML
FILES
22859
22859 Method 3
QXA20NEG20210210_CHHB0220DSML_HUMAN_PLASMA4_39.mzML
FILES
22859
22859 Method 4
QXA19POL20210129_CHHB0220DSML_HUMAN_PLASMA10_06.mzML
FILES
22859
22859 Method 4
QXA19POL20210129_CHHB0220DSML_HUMAN_PLASMA10_30.mzML
FILES
22859
22859 Method 4
QXA19POL20210129_CHHB0220DSML_HUMAN_PLASMA10_44.mzML
FILES
22859
22859 Method 4
QXA19POL20210129_CHHB0220DSML_HUMAN_PLASMA7_32.mzML
FILES
22859
22859 Method 4
QXA19POL20210129_CHHB0220DSML_HUMAN_PLASMA8_33.mzML
FILES
22859
22859 Method 4
QXA19POL20210129_CHHB0220DSML_HUMAN_PLASMA9_05.mzML
FILES
22859
22859 Method 4
QXA19POL20210129_CHHB0220DSML_HUMAN_PLASMA9_20.mzML
FILES
22859
22859 Method 4
QXA19POL20210201_CHHB0220DSML_HUMAN_PLASMA11_28.mzML
FILES
22859
22859 Method 4
QXA19POL20210201_CHHB0220DSML_HUMAN_PLASMA11_41.mzML
FILES
22859
22859 Method 4
QXA19POL20210201_CHHB0220DSML_HUMAN_PLASMA12_30.mzML
FILES
22859
22859 Method 4
QXA19POL20210201_CHHB0220DSML_HUMAN_PLASMA12_35.mzML
FILES
22859
22859 Method 4
QXA19POL20210201_CHHB0220DSML_HUMAN_PLASMA13_06.mzML
FILES
22859
22859 Method 4
QXA19POL20210201_CHHB0220DSML_HUMAN_PLASMA13_14.mzML
FILES
22859
22859 Method 4
QXA19POL20210201_CHHB0220DSML_HUMAN_PLASMA13_41.mzML
FILES
22859
22859 Method 4
QXA19POL20210201_CHHB0220DSML_HUMAN_PLASMA14_39.mzML
FILES
22859
22859 Method 4
QXA19POL20210210_CHHB0220DSML_HUMAN_PLASMA1_09.mzML
FILES
22859
22859 Method 4
QXA19POL20210210_CHHB0220DSML_HUMAN_PLASMA1_19.mzML
FILES
22859
22859 Method 4
QXA19POL20210210_CHHB0220DSML_HUMAN_PLASMA2_09.mzML
FILES
22859
22859 Method 4
QXA19POL20210210_CHHB0220DSML_HUMAN_PLASMA3_27.mzML
FILES
22859
22859 Method 4
QXA19POL20210210_CHHB0220DSML_HUMAN_PLASMA4_31.mzML
FILES
22859
22859 Method 4
QXA19POL20210210_CHHB0220DSML_HUMAN_PLASMA4_39.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA1_08.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA1_09.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA1_19.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA1_20.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA1_42.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA2_16.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA3_09.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA3_25.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA5_23.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA7_15.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA7_23.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210519_CHHB020120DSML_HUMAN_PLASMA7_37.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA10_38.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA11_11.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA11_36.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA12_17.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA12_28.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA12_42.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA13_08.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA13_17.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA13_25.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA13_37.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA14_21.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA14_37.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA15_18.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA15_26.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA15_30.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA15_44.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA16_04.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA16_42.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA9_09.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210524_CHHB020120DSML_HUMAN_PLASMA9_19.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210526_CHHB020120DSML_HUMAN_PLASMA17_32.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210526_CHHB020120DSML_HUMAN_PLASMA18_41.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210526_CHHB020120DSML_HUMAN_PLASMA19_35.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210526_CHHB020120DSML_HUMAN_PLASMA20_20.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210526_CHHB020120DSML_HUMAN_PLASMA21_04.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210526_CHHB020120DSML_HUMAN_PLASMA23_17.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210526_CHHB020120DSML_HUMAN_PLASMA23_38.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210526_CHHB020120DSML_HUMAN_PLASMA24_16.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210602_CHHB020120DSML_HUMAN_PLASMA22_25.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210602_CHHB020120DSML_HUMAN_PLASMA22_26.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210607_CHHB020120DSML_HUMAN_PLASMA25_36.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210607_CHHB020120DSML_HUMAN_PLASMA27_23.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210607_CHHB020120DSML_HUMAN_PLASMA27_26.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210607_CHHB020120DSML_HUMAN_PLASMA27_36.mzML
FILES
23192
23192 Method 1
QXA15POSEAR20210607_CHHB020120DSML_HUMAN_PLASMA28_17.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA1_08.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA1_09.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA1_19.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA1_20.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA1_42.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA2_16.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA3_09.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA3_25.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA5_23.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA7_15.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA7_23.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210519_CHHB020120DSML_HUMAN_PLASMA7_37.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA10_38.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA11_11.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA11_36.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA12_17.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA12_28.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA12_42.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA13_08.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA13_17.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA13_25.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA13_37.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA14_21.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA14_37.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA15_18.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA15_26.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA15_30.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA15_44.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA9_09.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210524_CHHB020120DSML_HUMAN_PLASMA9_19.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA17_32.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA18_41.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA19_35.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA20_20.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA21_04.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA22_25.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA22_26.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA23_17.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA23_38.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210526_CHHB020120DSML_HUMAN_PLASMA24_16.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210528_CHHB020120DSML_HUMAN_PLASMA25_36.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210528_CHHB020120DSML_HUMAN_PLASMA27_23.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210528_CHHB020120DSML_HUMAN_PLASMA27_26.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210528_CHHB020120DSML_HUMAN_PLASMA27_36.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210528_CHHB020120DSML_HUMAN_PLASMA28_17.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210530_CHHB020120DSML_HUMAN_PLASMA16_04.mzML
FILES
23192
23192 Method 2
QXA15POSLAT20210530_CHHB020120DSML_HUMAN_PLASMA16_42.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA1_08.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA1_09.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA1_19.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA1_20.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA1_42.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA2_16.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA3_09.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA3_25.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA5_23.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA7_15.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA7_23.mzML
FILES
23192
23192 Method 3
QXA14NEG20210519_CHHB020120DSML_HUMAN_PLASMA7_37.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA10_38.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA11_11.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA11_36.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA12_17.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA12_28.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA12_42.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA13_08.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA13_17.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA13_25.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA13_37.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA14_21.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA14_37.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA15_18.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA15_26.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA15_30.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA15_44.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA16_04.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA16_42.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA9_09.mzML
FILES
23192
23192 Method 3
QXA14NEG20210524_CHHB020120DSML_HUMAN_PLASMA9_19.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA17_32.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA18_41.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA19_35.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA20_20.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA21_04.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA22_25.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA22_26.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA23_17.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA23_38.mzML
FILES
23192
23192 Method 3
QXA14NEG20210526_CHHB020120DSML_HUMAN_PLASMA24_16.mzML
FILES
23192
23192 Method 3
QXA14NEG20210528_CHHB020120DSML_HUMAN_PLASMA25_36.mzML
FILES
23192
23192 Method 3
QXA14NEG20210528_CHHB020120DSML_HUMAN_PLASMA27_23.mzML
FILES
23192
23192 Method 3
QXA14NEG20210528_CHHB020120DSML_HUMAN_PLASMA27_26.mzML
FILES
23192
23192 Method 3
QXA14NEG20210528_CHHB020120DSML_HUMAN_PLASMA27_36.mzML
FILES
23192
23192 Method 3
QXA14NEG20210528_CHHB020120DSML_HUMAN_PLASMA28_17.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA1_08.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA1_09.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA1_19.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA1_20.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA1_42.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA2_16.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA3_09.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA3_25.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA5_23.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA7_15.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA7_23.mzML
FILES
23192
23192 Method 4
QXA16POL20210519_CHHB020120DSML_HUMAN_PLASMA7_37.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA10_38.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA11_11.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA11_36.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA12_17.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA12_28.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA12_42.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA13_08.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA13_17.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA13_25.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA13_37.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA14_21.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA14_37.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA15_18.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA15_26.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA15_30.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA15_44.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA16_04.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA16_42.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA9_09.mzML
FILES
23192
23192 Method 4
QXA16POL20210524_CHHB020120DSML_HUMAN_PLASMA9_19.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA17_32.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA18_41.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA19_35.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA20_20.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA21_04.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA22_25.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA22_26.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA23_17.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA23_38.mzML
FILES
23192
23192 Method 4
QXA16POL20210526_CHHB020120DSML_HUMAN_PLASMA24_16.mzML
FILES
23192
23192 Method 4
QXA16POL20210528_CHHB020120DSML_HUMAN_PLASMA25_36.mzML
FILES
23192
23192 Method 4
QXA16POL20210528_CHHB020120DSML_HUMAN_PLASMA27_23.mzML
FILES
23192
23192 Method 4
QXA16POL20210528_CHHB020120DSML_HUMAN_PLASMA27_26.mzML
FILES
23192
23192 Method 4
QXA16POL20210528_CHHB020120DSML_HUMAN_PLASMA27_36.mzML
FILES
23192
23192 Method 4
QXA16POL20210528_CHHB020120DSML_HUMAN_PLASMA28_17.mzML
FILES
23193
23193 Method 1
QXA15POSEAR20210601_CHHB020120DSML_HUMAN_PLASMA29_10.mzML
FILES
23193
23193 Method 1
QXA15POSEAR20210601_CHHB020120DSML_HUMAN_PLASMA29_17.mzML
FILES
23193
23193 Method 2
QXA15POSLAT20210601_CHHB020120DSML_HUMAN_PLASMA29_10.mzML
FILES
23193
23193 Method 2
QXA15POSLAT20210601_CHHB020120DSML_HUMAN_PLASMA29_17.mzML
FILES
23193
23193 Method 3
QXA14NEG20210601_CHHB020120DSML_HUMAN_PLASMA29_10.mzML
FILES
23193
23193 Method 3
QXA14NEG20210601_CHHB020120DSML_HUMAN_PLASMA29_17.mzML
FILES
23193
23193 Method 4
QXA16POL20210601_CHHB020120DSML_HUMAN_PLASMA29_10.mzML
FILES
23193
23193 Method 4
QXA16POL20210601_CHHB020120DSML_HUMAN_PLASMA29_17.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210922_CHHB020720DSML_HUMAN_PLASMA4_44.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210922_CHHB020720DSML_HUMAN_PLASMA5_08.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210922_CHHB020720DSML_HUMAN_PLASMA5_32.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210922_CHHB020720DSML_HUMAN_PLASMA6_17.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210922_CHHB020720DSML_HUMAN_PLASMA8_44.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA10_07.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA10_41.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA13_08.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA13_33.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA13_40.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA14_36.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA15_26.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA16_15.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA16_23.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA16_41.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210923_CHHB020720DSML_HUMAN_PLASMA9_29.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210927_CHHB020720DSML_HUMAN_PLASMA1_18.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210927_CHHB020720DSML_HUMAN_PLASMA1_44.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210928_CHHB020720DSML_HUMAN_PLASMA18_26.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210928_CHHB020720DSML_HUMAN_PLASMA19_03.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210928_CHHB020720DSML_HUMAN_PLASMA20_29.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210928_CHHB020720DSML_HUMAN_PLASMA22_41.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210928_CHHB020720DSML_HUMAN_PLASMA23_21.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210928_CHHB020720DSML_HUMAN_PLASMA23_35.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210928_CHHB020720DSML_HUMAN_PLASMA24_14.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210928_CHHB020720DSML_HUMAN_PLASMA24_23.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20210928_CHHB020720DSML_HUMAN_PLASMA24_30.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211006_CHHB020720DSML_HUMAN_PLASMA33_04.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211006_CHHB020720DSML_HUMAN_PLASMA33_30.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211006_CHHB020720DSML_HUMAN_PLASMA34_27.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211006_CHHB020720DSML_HUMAN_PLASMA35_04.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211006_CHHB020720DSML_HUMAN_PLASMA38_09.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211006_CHHB020720DSML_HUMAN_PLASMA38_36.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211006_CHHB020720DSML_HUMAN_PLASMA39_03.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211006_CHHB020720DSML_HUMAN_PLASMA39_09.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211006_CHHB020720DSML_HUMAN_PLASMA39_41.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA26_07.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA26_25.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA26_27.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA28_08.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA28_31.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA29_11.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA29_33.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA31_14.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA32_11.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA32_40.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211011_CHHB020720DSML_HUMAN_PLASMA40_39.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211015_CHHB020720DSML_HUMAN_PLASMA41_16.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211015_CHHB020720DSML_HUMAN_PLASMA42_15.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211015_CHHB020720DSML_HUMAN_PLASMA43_11.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211015_CHHB020720DSML_HUMAN_PLASMA43_29.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211015_CHHB020720DSML_HUMAN_PLASMA43_39.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211015_CHHB020720DSML_HUMAN_PLASMA44_37.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211015_CHHB020720DSML_HUMAN_PLASMA48_39.mzML
FILES
23664
23664 Method 1
QXA03POSEAR20211015_CHHB020720DSML_HUMAN_PLASMA48_40.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210922_CHHB020720DSML_HUMAN_PLASMA1_18.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210922_CHHB020720DSML_HUMAN_PLASMA1_44.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210922_CHHB020720DSML_HUMAN_PLASMA4_44.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210922_CHHB020720DSML_HUMAN_PLASMA5_08.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210922_CHHB020720DSML_HUMAN_PLASMA5_32.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA10_07.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA10_41.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA13_08.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA13_33.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA13_40.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA14_36.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA15_26.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA16_15.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA16_23.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA16_41.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210923_CHHB020720DSML_HUMAN_PLASMA9_29.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210927_CHHB020720DSML_HUMAN_PLASMA6_17.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210927_CHHB020720DSML_HUMAN_PLASMA8_44.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210928_CHHB020720DSML_HUMAN_PLASMA18_26.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210928_CHHB020720DSML_HUMAN_PLASMA19_03.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210928_CHHB020720DSML_HUMAN_PLASMA20_29.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210928_CHHB020720DSML_HUMAN_PLASMA22_41.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210928_CHHB020720DSML_HUMAN_PLASMA23_21.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210928_CHHB020720DSML_HUMAN_PLASMA23_35.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210928_CHHB020720DSML_HUMAN_PLASMA24_14.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210928_CHHB020720DSML_HUMAN_PLASMA24_23.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20210928_CHHB020720DSML_HUMAN_PLASMA24_30.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211004_CHHB020720DSML_HUMAN_PLASMA26_07.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211004_CHHB020720DSML_HUMAN_PLASMA26_25.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211004_CHHB020720DSML_HUMAN_PLASMA26_27.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211004_CHHB020720DSML_HUMAN_PLASMA28_08.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211004_CHHB020720DSML_HUMAN_PLASMA28_31.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211004_CHHB020720DSML_HUMAN_PLASMA29_11.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211004_CHHB020720DSML_HUMAN_PLASMA29_33.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211004_CHHB020720DSML_HUMAN_PLASMA31_14.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211006_CHHB020720DSML_HUMAN_PLASMA33_04.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211006_CHHB020720DSML_HUMAN_PLASMA33_30.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211006_CHHB020720DSML_HUMAN_PLASMA34_27.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211006_CHHB020720DSML_HUMAN_PLASMA35_04.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211006_CHHB020720DSML_HUMAN_PLASMA39_03.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211006_CHHB020720DSML_HUMAN_PLASMA39_09.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211006_CHHB020720DSML_HUMAN_PLASMA39_41.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211006_CHHB020720DSML_HUMAN_PLASMA40_39.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211008_CHHB020720DSML_HUMAN_PLASMA41_16.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211008_CHHB020720DSML_HUMAN_PLASMA42_15.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211008_CHHB020720DSML_HUMAN_PLASMA43_11.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211008_CHHB020720DSML_HUMAN_PLASMA43_29.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211008_CHHB020720DSML_HUMAN_PLASMA43_39.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211008_CHHB020720DSML_HUMAN_PLASMA44_37.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211011_CHHB020720DSML_HUMAN_PLASMA32_11.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211011_CHHB020720DSML_HUMAN_PLASMA32_40.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211014_CHHB020720DSML_HUMAN_PLASMA38_09.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211014_CHHB020720DSML_HUMAN_PLASMA38_36.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211015_CHHB020720DSML_HUMAN_PLASMA48_39.mzML
FILES
23664
23664 Method 2
QXA03POSLAT20211015_CHHB020720DSML_HUMAN_PLASMA48_40.mzML
FILES
23664
23664 Method 3
QXA01NEG20210922_CHHB020720DSML_HUMAN_PLASMA1_18.mzML
FILES
23664
23664 Method 3
QXA01NEG20210922_CHHB020720DSML_HUMAN_PLASMA1_44.mzML
FILES
23664
23664 Method 3
QXA01NEG20210922_CHHB020720DSML_HUMAN_PLASMA4_44.mzML
FILES
23664
23664 Method 3
QXA01NEG20210922_CHHB020720DSML_HUMAN_PLASMA5_08.mzML
FILES
23664
23664 Method 3
QXA01NEG20210922_CHHB020720DSML_HUMAN_PLASMA5_32.mzML
FILES
23664
23664 Method 3
QXA01NEG20210922_CHHB020720DSML_HUMAN_PLASMA6_17.mzML
FILES
23664
23664 Method 3
QXA01NEG20210922_CHHB020720DSML_HUMAN_PLASMA8_44.mzML
FILES
23664
23664 Method 3
QXA01NEG20210928_CHHB020720DSML_HUMAN_PLASMA18_26.mzML
FILES
23664
23664 Method 3
QXA01NEG20210928_CHHB020720DSML_HUMAN_PLASMA19_03.mzML
FILES
23664
23664 Method 3
QXA01NEG20210928_CHHB020720DSML_HUMAN_PLASMA20_29.mzML
FILES
23664
23664 Method 3
QXA01NEG20210928_CHHB020720DSML_HUMAN_PLASMA22_41.mzML
FILES
23664
23664 Method 3
QXA01NEG20210928_CHHB020720DSML_HUMAN_PLASMA23_21.mzML
FILES
23664
23664 Method 3
QXA01NEG20210928_CHHB020720DSML_HUMAN_PLASMA23_35.mzML
FILES
23664
23664 Method 3
QXA01NEG20210928_CHHB020720DSML_HUMAN_PLASMA24_14.mzML
FILES
23664
23664 Method 3
QXA01NEG20210928_CHHB020720DSML_HUMAN_PLASMA24_23.mzML
FILES
23664
23664 Method 3
QXA01NEG20210928_CHHB020720DSML_HUMAN_PLASMA24_30.mzML
FILES
23664
23664 Method 3
QXA01NEG20210929_CHHB020720DSML_HUMAN_PLASMA10_07.mzML
FILES
23664
23664 Method 3
QXA01NEG20210929_CHHB020720DSML_HUMAN_PLASMA10_41.mzML
FILES
23664
23664 Method 3
QXA01NEG20210929_CHHB020720DSML_HUMAN_PLASMA13_08.mzML
FILES
23664
23664 Method 3
QXA01NEG20210929_CHHB020720DSML_HUMAN_PLASMA13_33.mzML
FILES
23664
23664 Method 3
QXA01NEG20210929_CHHB020720DSML_HUMAN_PLASMA13_40.mzML
FILES
23664
23664 Method 3
QXA01NEG20210929_CHHB020720DSML_HUMAN_PLASMA14_36.mzML
FILES
23664
23664 Method 3
QXA01NEG20210929_CHHB020720DSML_HUMAN_PLASMA15_26.mzML
FILES
23664
23664 Method 3
QXA01NEG20210929_CHHB020720DSML_HUMAN_PLASMA16_15.mzML
FILES
23664
23664 Method 3
QXA01NEG20210929_CHHB020720DSML_HUMAN_PLASMA16_23.mzML
FILES
23664
23664 Method 3
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_ImmPort_sample_id
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
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IGNORED:  Assay_Term Accession Number.12
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IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
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IGNORED:  Samples_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 71%|███████   | 1190/1674 [2:46:10<7:16:06, 54.06s/it]
IGNORED:  base
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IGNORED:  Assay_Term Source REF.4
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Number of rows removed due to not enough metadata: 0
Returning 500 rows!
Added 500 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6615
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Orbitrap ID-X Tribrid: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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lipidomics raw data/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 203 rows!
Added 203 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS662
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS665
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
VT_150411_001.cdf
FILES
VT_150411_002.cdf
FILES
VT_150411_003.cdf
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VT_150411_058.cdf
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VT_150411_064.cdf
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VT_150411_065.cdf
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VT_150411_067.cdf
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VT_150411_068.cdf
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VT_150411_069.cdf
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VT_150411_070.cdf
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VT_150411_072.cdf
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VT_150411_073.cdf
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VT_150411_074.cdf
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VT_150411_075.cdf
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VT_150411_077.cdf
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VT_150411_079.cdf
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VT_150411_082.cdf
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VT_150411_089.cdf
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VT_150411_102.cdf
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VT_150411_103.cdf
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VT_150411_104.cdf
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VT_150411_105.cdf
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VT_150411_106.cdf
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VT_150411_125.cdf
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VT_150411_128.cdf
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VT_150411_129.cdf
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VT_150411_142.cdf
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VT_150411_143.cdf
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VT_150411_179.cdf
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VT_150411_188.cdf
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VT_150411_189.cdf
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VT_150411_206.cdf
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VT_150411_208.cdf
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VT_150411_209.cdf
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VT_150821_003.cdf
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VT_150821_004.cdf
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VT_150821_005.cdf
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VT_150821_006.cdf
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VT_150821_007.cdf
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VT_150821_008.cdf
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VT_150821_009.cdf
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VT_150821_012.cdf
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VT_150821_013.cdf
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VT_150821_014.cdf
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VT_150821_149.cdf
FILES
VT_150821_150.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 71%|███████▏  | 1193/1674 [2:46:55<3:42:54, 27.81s/it]
 71%|███████▏  | 1194/1674 [2:46:56<2:39:40, 19.96s/it]
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
VT_150821_180.cdf
FILES
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FILES
VT_150821_182.cdf
FILES
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VT_150821_186.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Batch run order
IGNORED:  Assay_Previous Malaria Infection
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Samples_Organism part
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Variant
IGNORED:  Samples_Organism
IGNORED:  Samples_Previous Malaria Infection
IGNORED:  Samples_Time Point
IGNORED:  Is Fluid
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Time Point
IGNORED:  Samples_Term Source REF.3
IGNORED:  keep
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Run order
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 396 rows!
Added 396 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS666
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6667
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
Negative
B11_10_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_10_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_12_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_12_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_14_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_14_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_15_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_15_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_16_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_16_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_1_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_1_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_2_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_2_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_3_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_3_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_4_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_4_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_6_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_6_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_7_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_7_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_8_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_8_cells.mzXML
FILES
DERIVED_FILES
Negative
B11_9_SN.mzXML
FILES
DERIVED_FILES
Negative
B11_9_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_11_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_11_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_13_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_13_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_14_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_14_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_15_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_15_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_1_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_1_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_2_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_2_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_3_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_3_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_4_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_4_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_5_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_5_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_6_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_6_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_7_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_7_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_8_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_8_cells.mzXML
FILES
DERIVED_FILES
Negative
B12_9_SN.mzXML
FILES
DERIVED_FILES
Negative
B12_9_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_11_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_11_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_12_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_12_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_13_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_13_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_14_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_14_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_1_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_1_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_2_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_2_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_3_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_3_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_4_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_4_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_5_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_5_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_6_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_6_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_7_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_7_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_8_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_8_cells.mzXML
FILES
DERIVED_FILES
Negative
B13_9_SN.mzXML
FILES
DERIVED_FILES
Negative
B13_9_cells.mzXML
FILES
DERIVED_FILES
Negative
QCA1_20MAY19.mzXML
FILES
DERIVED_FILES
Negative
QCA2_20MAY19.mzXML
FILES
DERIVED_FILES
Negative
QCB1_20MAY19.mzXML
FILES
DERIVED_FILES
Negative
QCB2_20MAY19.mzXML
FILES
DERIVED_FILES
Negative
blank1.mzXML
FILES
DERIVED_FILES
Negative
blank2.mzXML
FILES
DERIVED_FILES
Negative
blank3.mzXML
FILES
DERIVED_FILES
Negative
blank4.mzXML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 71%|███████▏  | 1195/1674 [2:47:19<2:46:08, 20.81s/it]
 71%|███████▏  | 1196/1674 [2:47:21<1:59:11, 14.96s/it]
 72%|███████▏  | 1197/1674 [2:47:25<1:34:58, 11.95s/it]
DERIVED_FILES
Negative
blank5.mzXML
FILES
DERIVED_FILES
Negative
blank6.mzXML
FILES
DERIVED_FILES
Negative
blank7.mzXML
FILES
DERIVED_FILES
Negative
matrix_blank1.mzXML
FILES
DERIVED_FILES
Negative
matrix_blank2.mzXML
FILES
DERIVED_FILES
Negative
matrix_blank3.mzXML
FILES
DERIVED_FILES
Negative
matrix_blank4.mzXML
FILES
DERIVED_FILES
Negative
matrix_blank5.mzXML
FILES
DERIVED_FILES
Negative
matrix_blank6.mzXML
FILES
DERIVED_FILES
Negative
pooled_1.mzXML
FILES
DERIVED_FILES
Negative
pooled_10.mzXML
FILES
DERIVED_FILES
Negative
pooled_11.mzXML
FILES
DERIVED_FILES
Negative
pooled_12.mzXML
FILES
DERIVED_FILES
Negative
pooled_13.mzXML
FILES
DERIVED_FILES
Negative
pooled_14.mzXML
FILES
DERIVED_FILES
Negative
pooled_15.mzXML
FILES
DERIVED_FILES
Negative
pooled_16.mzXML
FILES
DERIVED_FILES
Negative
pooled_17.mzXML
FILES
DERIVED_FILES
Negative
pooled_18.mzXML
FILES
DERIVED_FILES
Negative
pooled_19.mzXML
FILES
DERIVED_FILES
Negative
pooled_2.mzXML
FILES
DERIVED_FILES
Negative
pooled_20.mzXML
FILES
DERIVED_FILES
Negative
pooled_21.mzXML
FILES
DERIVED_FILES
Negative
pooled_22.mzXML
FILES
DERIVED_FILES
Negative
pooled_23.mzXML
FILES
DERIVED_FILES
Negative
pooled_24.mzXML
FILES
DERIVED_FILES
Negative
pooled_25.mzXML
FILES
DERIVED_FILES
Negative
pooled_26.mzXML
FILES
DERIVED_FILES
Negative
pooled_27.mzXML
FILES
DERIVED_FILES
Negative
pooled_28.mzXML
FILES
DERIVED_FILES
Negative
pooled_3.mzXML
FILES
DERIVED_FILES
Negative
pooled_4.mzXML
FILES
DERIVED_FILES
Negative
pooled_5.mzXML
FILES
DERIVED_FILES
Negative
pooled_6.mzXML
FILES
DERIVED_FILES
Negative
pooled_7.mzXML
FILES
DERIVED_FILES
Negative
pooled_8.mzXML
FILES
DERIVED_FILES
Negative
pooled_9.mzXML
FILES
DERIVED_FILES
Negative
solv_blank_1.mzXML
FILES
DERIVED_FILES
Negative
solv_blank_2.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Assay_Derived Spectral Data File.1
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Cellular location
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 125 rows!
Added 125 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS669
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS670
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS94
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
P_A_10_Rep1_neg.raw
FILES
P_A_10_Rep1_pos.raw
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P_A_10_Rep2_neg.raw
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P_A_10_Rep2_pos.raw
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P_A_10_Rep3_neg.raw
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P_A_10_Rep4_neg.raw
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P_A_11_Rep1_neg.raw
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P_A_11_Rep2_pos.raw
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P_A_11_Rep3_pos.raw
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P_A_12_Rep1_neg.raw
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P_A_13_Rep1_neg.raw
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P_A_1_Rep2_pos.raw
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P_A_1_Rep3_pos.raw
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P_A_2_Rep1_neg.raw
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P_A_2_Rep1_pos.raw
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P_A_2_Rep2_neg.raw
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P_A_2_Rep2_pos.raw
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P_A_3_Rep1_neg.raw
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P_A_3_Rep2_pos.raw
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P_A_4_Rep3_pos.raw
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P_A_5_Rep3_neg.raw
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P_A_5_Rep3_pos.raw
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P_A_5_Rep4_pos.raw
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P_A_6_Rep1_neg.raw
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P_A_6_Rep1_pos.raw
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P_A_6_Rep2_neg.raw
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P_A_6_Rep2_pos.raw
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P_A_6_Rep3_neg.raw
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P_A_6_Rep3_pos.raw
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P_A_6_Rep4_neg.raw
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P_A_6_Rep4_pos.raw
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P_A_7_Rep1_neg.raw
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P_A_7_Rep1_pos.raw
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P_A_7_Rep2_pos.raw
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P_A_7_Rep3_neg.raw
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P_A_7_Rep3_pos.raw
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P_A_7_Rep4_neg.raw
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P_A_7_Rep4_pos.raw
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P_A_8_Rep1_neg.raw
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P_A_8_Rep1_pos.raw
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P_A_8_Rep2_neg.raw
FILES
P_A_8_Rep2_pos.raw
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P_A_8_Rep3_neg.raw
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P_A_8_Rep3_pos.raw
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P_A_8_Rep4_neg.raw
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P_A_8_Rep4_pos.raw
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P_A_9_Rep1_neg.raw
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P_A_9_Rep1_pos.raw
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P_A_9_Rep2_neg.raw
FILES
P_A_9_Rep2_pos.raw
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P_A_9_Rep3_neg.raw
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P_A_9_Rep3_pos.raw
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P_A_9_Rep4_neg.raw
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P_A_9_Rep4_pos.raw
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P_B_10_Rep1_neg.raw
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P_B_10_Rep1_pos.raw
FILES
P_B_10_Rep2_neg.raw
FILES
P_B_10_Rep2_pos.raw
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P_B_10_Rep3_neg.raw
FILES
P_B_10_Rep3_pos.raw
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P_B_10_Rep4_neg.raw
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P_B_10_Rep4_pos.raw
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P_B_11_Rep1_neg.raw
FILES
P_B_11_Rep1_pos.raw
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P_B_11_Rep2_neg.raw
FILES
P_B_11_Rep2_pos.raw
FILES
P_B_11_Rep3_neg.raw
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P_B_11_Rep3_pos.raw
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P_B_11_Rep4_neg.raw
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P_B_11_Rep4_pos.raw
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P_B_12_Rep1_neg.raw
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P_B_12_Rep1_pos.raw
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P_B_12_Rep2_neg.raw
FILES
P_B_12_Rep2_pos.raw
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P_B_12_Rep3_neg.raw
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P_B_12_Rep3_pos.raw
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P_B_12_Rep4_neg.raw
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P_B_12_Rep4_pos.raw
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P_B_13_Rep1_neg.raw
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P_B_13_Rep1_pos.raw
FILES
P_B_13_Rep2_neg.raw
FILES
P_B_13_Rep2_pos.raw
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P_B_13_Rep3_neg.raw
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P_B_13_Rep3_pos.raw
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P_B_13_Rep4_neg.raw
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P_B_13_Rep4_pos.raw
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P_B_14_Rep1_neg.raw
FILES
P_B_14_Rep1_pos.raw
FILES
P_B_14_Rep2_neg.raw
FILES
P_B_14_Rep2_pos.raw
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P_B_14_Rep3_neg.raw
FILES
P_B_14_Rep3_pos.raw
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P_B_14_Rep4_neg.raw
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P_B_14_Rep4_pos.raw
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P_B_15_Rep1_neg.raw
FILES
P_B_15_Rep1_pos.raw
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P_B_15_Rep2_neg.raw
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P_B_15_Rep2_pos.raw
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P_B_15_Rep3_neg.raw
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P_B_15_Rep3_pos.raw
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P_B_15_Rep4_neg.raw
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P_B_15_Rep4_pos.raw
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P_B_1_Rep1_neg.raw
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P_B_1_Rep1_pos.raw
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P_B_1_Rep2_neg.raw
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P_B_1_Rep2_pos.raw
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P_B_1_Rep3_neg.raw
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P_B_1_Rep3_pos.raw
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P_B_1_Rep4_neg.raw
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P_B_1_Rep4_pos.raw
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P_B_2_Rep1_neg.raw
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P_B_2_Rep1_pos.raw
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P_B_2_Rep2_neg.raw
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P_B_2_Rep2_pos.raw
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P_B_2_Rep3_neg.raw
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P_B_2_Rep3_pos.raw
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P_B_2_Rep4_neg.raw
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P_B_2_Rep4_pos.raw
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P_B_3_Rep1_neg.raw
FILES
P_B_3_Rep1_pos.raw
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P_B_3_Rep2_neg.raw
FILES
P_B_3_Rep2_pos.raw
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P_B_3_Rep3_neg.raw
FILES
P_B_3_Rep3_pos.raw
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P_B_3_Rep4_neg.raw
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P_B_3_Rep4_pos.raw
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P_B_4_Rep1_neg.raw
FILES
P_B_4_Rep1_pos.raw
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P_B_4_Rep2_neg.raw
FILES
P_B_4_Rep2_pos.raw
FILES
P_B_4_Rep3_neg.raw
FILES
P_B_4_Rep3_pos.raw
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P_B_4_Rep4_neg.raw
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P_B_5_Rep1_neg.raw
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P_B_5_Rep1_pos.raw
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FILES
P_B_5_Rep2_pos.raw
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P_B_5_Rep3_neg.raw
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P_B_5_Rep4_neg.raw
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FILES
P_B_6_Rep2_pos.raw
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P_B_7_Rep1_pos.raw
FILES
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FILES
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P_B_8_Rep1_neg.raw
FILES
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FILES
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FILES
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FILES
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FILES
P_C_10_Rep1_pos.raw
FILES
P_C_10_Rep2_neg.raw
FILES
P_C_10_Rep2_pos.raw
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P_C_10_Rep3_neg.raw
FILES
P_C_10_Rep3_pos.raw
FILES
P_C_10_Rep4_neg.raw
FILES
P_C_10_Rep4_pos.raw
FILES
P_C_11_Rep1_neg.raw
FILES
P_C_11_Rep1_pos.raw
FILES
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6728
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Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 194 rows!
Added 194 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6742
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
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IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 72%|███████▏  | 1202/1674 [2:48:06<1:01:48,  7.86s/it]
 72%|███████▏  | 1203/1674 [2:48:08<47:02,  5.99s/it]  
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS675
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6767
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 72%|███████▏  | 1204/1674 [2:48:21<1:03:43,  8.13s/it]
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 174 rows!
Added 174 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6768
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Protocol REF13
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Term Source REF
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF2
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Number of rows removed due to not enough metadata: 0
Returning 736 rows!
Added 736 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9415
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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UBERONBodyPartName:
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ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
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IGNORED:  Samples_Term Source REF.6
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IGNORED:  Is Fluid
IGNORED:  keep
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Cb-839
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 76 rows!
Added 76 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9418
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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21103 Method 1
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21103
21103 Method 2
QXA15POSLAT20191014_NCIA0819ML_HUMAN_PANCREAS3_33.mzML
FILES
21103
21103 Method 2
QXA15POSLAT20191014_NCIA0819ML_HUMAN_PANCREAS3_34.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_03.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_04.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_05.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_06.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_07.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_08.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_10.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_11.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_12.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_13.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_14.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_15.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_16.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_17.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_19.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_20.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_21.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_22.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_23.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_24.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_25.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_27.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_28.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_29.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_30.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_31.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_32.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_33.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS1_34.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_03.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_04.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_05.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_06.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_07.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_08.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_10.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_11.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_12.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_13.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_14.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_15.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_16.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_17.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_19.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_20.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_21.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_22.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_23.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_24.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_25.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_27.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_28.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_29.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_30.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_31.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_32.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_33.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS2_34.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_03.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_04.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_05.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_06.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_07.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_08.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_10.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_11.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_12.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_13.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_14.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_15.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_16.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_17.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_19.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_20.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_21.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_22.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_23.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_24.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_25.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_27.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_28.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_29.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_30.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_31.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_32.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_33.mzML
FILES
21103
21103 Method 3
QXA14NEG20191014_NCIA0819ML_HUMAN_PANCREAS3_34.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_03.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_04.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_05.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_06.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_07.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_08.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_10.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_11.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_12.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_13.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_14.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_15.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_16.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_17.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_19.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_20.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_21.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_22.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_23.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_24.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_25.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_27.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_28.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_29.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_30.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_31.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_32.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_33.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS1_34.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_03.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_04.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_05.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_06.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_07.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_08.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_10.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_11.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_12.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_13.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_14.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_15.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_16.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_17.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_19.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_20.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_21.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_22.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_23.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_24.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_25.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_27.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_28.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_29.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_30.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_31.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_32.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_33.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS2_34.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_03.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_04.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_05.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_06.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_07.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_08.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_10.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_11.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_12.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_13.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_14.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_15.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_16.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_17.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_19.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_20.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_21.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_22.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_23.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_24.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_25.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_27.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_28.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_29.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_30.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_31.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_32.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_33.mzML
FILES
21103
21103 Method 4
QXA16POL20191014_NCIA0819ML_HUMAN_PANCREAS3_34.mzML
FILES
23607
23607 Method 1
QXA10POSEAR20210914_NCIA0121VW_HUMAN_CELLS1_03.mzML
FILES
23607
23607 Method 1
QXA10POSEAR20210914_NCIA0121VW_HUMAN_CELLS1_06.mzML
FILES
23607
23607 Method 1
QXA10POSEAR20210914_NCIA0121VW_HUMAN_CELLS1_11.mzML
FILES
23607
23607 Method 1
QXA10POSEAR20210914_NCIA0121VW_HUMAN_CELLS1_15.mzML
FILES
23607
23607 Method 1
QXA10POSEAR20210914_NCIA0121VW_HUMAN_CELLS2_10.mzML
FILES
23607
23607 Method 1
QXA10POSEAR20210914_NCIA0121VW_HUMAN_CELLS2_27.mzML
FILES
23607
23607 Method 1
QXA10POSEAR20210914_NCIA0121VW_HUMAN_CELLS3_22.mzML
FILES
23607
23607 Method 1
QXA10POSEAR20210914_NCIA0121VW_HUMAN_CELLS3_23.mzML
FILES
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QXA10POSLAT20210914_NCIA0121VW_HUMAN_CELLS1_03.mzML
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QXA10POSLAT20210914_NCIA0121VW_HUMAN_CELLS1_06.mzML
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QXA10POSLAT20210914_NCIA0121VW_HUMAN_CELLS1_11.mzML
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QXA10POSLAT20210914_NCIA0121VW_HUMAN_CELLS1_15.mzML
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QXA10POSLAT20210914_NCIA0121VW_HUMAN_CELLS2_10.mzML
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QXA10POSLAT20210914_NCIA0121VW_HUMAN_CELLS2_27.mzML
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QXA10POSLAT20210914_NCIA0121VW_HUMAN_CELLS3_22.mzML
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QXA10POSLAT20210914_NCIA0121VW_HUMAN_CELLS3_23.mzML
FILES
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QXA09NEG20210914_NCIA0121VW_HUMAN_CELLS1_03.mzML
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QXA09NEG20210914_NCIA0121VW_HUMAN_CELLS1_06.mzML
FILES
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QXA09NEG20210914_NCIA0121VW_HUMAN_CELLS1_11.mzML
FILES
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QXA09NEG20210914_NCIA0121VW_HUMAN_CELLS1_15.mzML
FILES
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QXA09NEG20210914_NCIA0121VW_HUMAN_CELLS2_10.mzML
FILES
23607
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QXA09NEG20210914_NCIA0121VW_HUMAN_CELLS2_27.mzML
FILES
23607
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QXA09NEG20210914_NCIA0121VW_HUMAN_CELLS3_22.mzML
FILES
23607
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QXA09NEG20210914_NCIA0121VW_HUMAN_CELLS3_23.mzML
FILES
23607
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QXA08POL20210914_NCIA0121VW_HUMAN_CELLS1_03.mzML
FILES
23607
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QXA08POL20210914_NCIA0121VW_HUMAN_CELLS1_06.mzML
FILES
23607
23607 Method 4
QXA08POL20210914_NCIA0121VW_HUMAN_CELLS1_11.mzML
FILES
23607
23607 Method 4
QXA08POL20210914_NCIA0121VW_HUMAN_CELLS1_15.mzML
FILES
23607
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 72%|███████▏  | 1207/1674 [2:49:09<1:42:28, 13.17s/it]23607 Method 4
QXA08POL20210914_NCIA0121VW_HUMAN_CELLS2_10.mzML
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23607 Method 4
QXA08POL20210914_NCIA0121VW_HUMAN_CELLS2_27.mzML
FILES
23607
23607 Method 4
QXA08POL20210914_NCIA0121VW_HUMAN_CELLS3_22.mzML
FILES
23607
23607 Method 4
QXA08POL20210914_NCIA0121VW_HUMAN_CELLS3_23.mzML
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Number of rows removed due to not enough metadata: 0
Returning 380 rows!
Added 380 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9419
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 72%|███████▏  | 1208/1674 [2:49:16<1:26:53, 11.19s/it]
RAW_FILES
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Number of rows removed due to not enough metadata: 0
Returning 106 rows!
Added 106 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS679
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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FILES
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pos_001_2017_B_KNAARV_A010_b_1-B,8_01_8394.mzML
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IGNORED:  Samples_Plot/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.19
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Number of rows removed due to not enough metadata: 0
Returning 596 rows!
Added 596 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7999
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 102 rows!
Added 102 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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15_1.cdf
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 126 rows!
Added 126 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS685
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS687
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Scan polarity/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 72%|███████▏  | 1213/1674 [2:50:27<1:32:33, 12.05s/it]
 73%|███████▎  | 1214/1674 [2:50:31<1:12:21,  9.44s/it]
 73%|███████▎  | 1215/1674 [2:50:35<59:49,  7.82s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1216/1674 [2:50:40<54:02,  7.08s/it]
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IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 14
Returning 401 rows!
Added 401 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6894
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS69
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS692
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
WT_nossen_ROOT_1.mzML
FILES
WT_nossen_ROOT_2.mzML
FILES
WT_nossen_ROOT_3.mzML
FILES
WT_nossen_ROOT_4.mzML
FILES
WT_nossen_ROOT_5.mzML
FILES
WT_nossen_ROOT_6.mzML
FILES
WT_nossen_ROOT_7.mzML
FILES
WT_nossen_ROOT_8.mzML
FILES
WT_nossen_STEM_1.mzML
FILES
WT_nossen_STEM_2.mzML
FILES
WT_nossen_STEM_3.mzML
FILES
WT_nossen_STEM_4.mzML
FILES
WT_nossen_STEM_5.mzML
FILES
WT_nossen_STEM_6.mzML
FILES
WT_nossen_STEM_7.mzML
FILES
WT_nossen_STEM_8.mzML
FILES
WT_nossen_STEM_9.mzML
FILES
cosy1_ROOT_1.mzML
FILES
cosy1_ROOT_2.mzML
FILES
cosy1_ROOT_3.mzML
FILES
cosy1_ROOT_4.mzML
FILES
cosy1_ROOT_5.mzML
FILES
cosy1_ROOT_6.mzML
FILES
cosy1_ROOT_7.mzML
FILES
cosy1_ROOT_8.mzML
FILES
cosy1_ROOT_9.mzML
FILES
cosy1_STEM_1.mzML
FILES
cosy1_STEM_2.mzML
FILES
cosy1_STEM_3.mzML
FILES
cosy1_STEM_4.mzML
FILES
cosy1_STEM_5.mzML
FILES
cosy1_STEM_6.mzML
FILES
cosy1_STEM_7.mzML
FILES
cosy1_STEM_8.mzML
FILES
cosy1_STEM_9.mzML
FILES
cosy2_ROOT_1.mzML
FILES
cosy2_ROOT_2.mzML
FILES
cosy2_ROOT_3.mzML
FILES
cosy2_ROOT_4.mzML
FILES
cosy2_ROOT_5.mzML
FILES
cosy2_ROOT_6.mzML
FILES
cosy2_ROOT_7.mzML
FILES
cosy2_ROOT_8.mzML
FILES
cosy2_ROOT_9.mzML
FILES
cosy2_STEM_1.mzML
FILES
cosy2_STEM_2.mzML
FILES
cosy2_STEM_3.mzML
FILES
cosy2_STEM_4.mzML
FILES
cosy2_STEM_5.mzML
FILES
cosy2_STEM_6.mzML
FILES
cosy2_STEM_7.mzML
FILES
cosy2_STEM_8.mzML
FILES
cosy2_STEM_9.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Plant part
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Gene knockout
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 53 rows!
Added 53 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6927
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
HFX3_CN1_FZTM190600523-1A.raw
FILES
RAW_FILES
NEG
HFX3_CN1_FZTM190600524-1A.raw
FILES
RAW_FILES
NEG
HFX3_CN1_FZTM190600525-1A.raw
FILES
RAW_FILES
NEG
HFX3_CN2_FZTM191632868-1A.raw
FILES
RAW_FILES
NEG
HFX3_CN2_FZTM191632869-1A.raw
FILES
RAW_FILES
NEG
HFX3_CN2_FZTM19H100724-1A.raw
FILES
RAW_FILES
POS
HFX3_CP1_FZTM190600523-1A.raw
FILES
RAW_FILES
POS
HFX3_CP1_FZTM190600524-1A.raw
FILES
RAW_FILES
POS
HFX3_CP1_FZTM190600525-1A.raw
FILES
RAW_FILES
POS
HFX3_CP2_FZTM191632868-1A.raw
FILES
RAW_FILES
POS
HFX3_CP2_FZTM191632869-1A.raw
FILES
RAW_FILES
POS
HFX3_CP2_FZTM19H100724-1A.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1217/1674 [2:50:44<46:34,  6.11s/it]
 73%|███████▎  | 1218/1674 [2:50:46<36:25,  4.79s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1219/1674 [2:50:52<39:33,  5.22s/it]
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Skin color
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6965
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6968
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5973 MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
CT14A3.mzML
FILES
DERIVED_FILES
CT14B3.mzML
FILES
DERIVED_FILES
CT14C3.mzML
FILES
DERIVED_FILES
CT24A3.mzML
FILES
DERIVED_FILES
CT24B3.mzML
FILES
DERIVED_FILES
CT24C3.mzML
FILES
DERIVED_FILES
CT31A3.mzML
FILES
DERIVED_FILES
CT31B3.mzML
FILES
DERIVED_FILES
CT31C3.mzML
FILES
DERIVED_FILES
CT7A3.mzML
FILES
DERIVED_FILES
CT7B3.mzML
FILES
DERIVED_FILES
CT7C3.mzML
FILES
DERIVED_FILES
DT14A3.mzML
FILES
DERIVED_FILES
DT14B3.mzML
FILES
DERIVED_FILES
DT14C3.mzML
FILES
DERIVED_FILES
DT24A3.mzML
FILES
DERIVED_FILES
DT24B3.mzML
FILES
DERIVED_FILES
DT24C3.mzML
FILES
DERIVED_FILES
DT31A3.mzML
FILES
DERIVED_FILES
DT31B3.mzML
FILES
DERIVED_FILES
DT31C3.mzML
FILES
DERIVED_FILES
DT7A3.mzML
FILES
DERIVED_FILES
DT7B3.mzML
FILES
DERIVED_FILES
DT7C3.mzML
FILES
DERIVED_FILES
GT14A3.mzML
FILES
DERIVED_FILES
GT14B3.mzML
FILES
DERIVED_FILES
GT14C3.mzML
FILES
DERIVED_FILES
GT24A3.mzML
FILES
DERIVED_FILES
GT24B3.mzML
FILES
DERIVED_FILES
GT24C3.mzML
FILES
DERIVED_FILES
GT31A3.mzML
FILES
DERIVED_FILES
GT31B3.mzML
FILES
DERIVED_FILES
GT31C3.mzML
FILES
DERIVED_FILES
GT7A3.mzML
FILES
DERIVED_FILES
GT7B3.mzML
FILES
DERIVED_FILES
GT7C3.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Thermal Desorption unit
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Microbial commnity
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Cheese maturation
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS803
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
SAMN07448968.CDF
FILES
SAMN07448969.CDF
FILES
SAMN07448969_S.CDF
FILES
SAMN07448970.CDF
FILES
SAMN07448970_S.CDF
FILES
SAMN07448971.CDF
FILES
SAMN07448971_S.CDF
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SAMN07448972.CDF
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SAMN07448972_S.CDF
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SAMN07448973.CDF
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SAMN07448973_S.CDF
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SAMN07448974.CDF
FILES
SAMN07448974_S.CDF
FILES
SAMN07448975.CDF
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SAMN07448975_S.CDF
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SAMN07448976.CDF
FILES
SAMN07448976_S.CDF
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SAMN07448977.CDF
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SAMN07448977_S.CDF
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SAMN07448978.CDF
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SAMN07448979.CDF
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SAMN07448984_S.CDF
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SAMN07448994.CDF
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SAMN07448995.CDF
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SAMN07448997.CDF
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SAMN07448998.CDF
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SAMN07448999.CDF
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SAMN07449000.CDF
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SAMN07449000_S.CDF
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SAMN07449001_S.CDF
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SAMN07449002.CDF
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SAMN07449002_S.CDF
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SAMN07449003.CDF
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SAMN07449004.CDF
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SAMN07449005.CDF
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SAMN07449006.CDF
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SAMN07449007.CDF
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SAMN07449008.CDF
FILES
SAMN07449009.CDF
FILES
SAMN07449010.CDF
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SAMN07449011.CDF
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SAMN07449012.CDF
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SAMN07449013.CDF
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SAMN07449014.CDF
FILES
SAMN07449015.CDF
FILES
SAMN07449016.CDF
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SAMN07449017.CDF
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SAMN07449018.CDF
FILES
SAMN07449019.CDF
FILES
SAMN07449020.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1220/1674 [2:50:58<41:48,  5.52s/it]
FILES
SAMN07449021.CDF
FILES
SAMN07449022.CDF
FILES
SAMN07449023.CDF
FILES
SAMN07449024.CDF
FILES
SAMN07449025.CDF
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SAMN07449026.CDF
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SAMN07449027.CDF
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SAMN07449028.CDF
FILES
SAMN07449029.CDF
FILES
SAMN07449030.CDF
FILES
SAMN07449031.CDF
FILES
SAMN07449032.CDF
FILES
SAMN07449033.CDF
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SAMN07449034.CDF
FILES
SAMN07449035.CDF
FILES
SAMN07449036.CDF
FILES
SAMN07449037.CDF
FILES
SAMN07449038.CDF
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SAMN07449039.CDF
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Number of rows removed due to not enough metadata: 0
Returning 141 rows!
Added 141 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS699
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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IonizationSourceAndPolarity:
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ChromatographyAndPhase:
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ENVOEnvironmentBiome:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Protocol REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1221/1674 [2:51:06<46:46,  6.20s/it]
 73%|███████▎  | 1222/1674 [2:51:11<44:18,  5.88s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1223/1674 [2:51:18<46:43,  6.22s/it]
IGNORED:  Samples_Variant
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Number of rows removed due to not enough metadata: 1
Returning 143 rows!
Added 143 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6990
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6991
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific TSQ Altis Plus: missing value
UBERONBodyPartName:
  : missing value
FILES
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IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Cell density
IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 6
Returning 2 rows!
Added 2 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS703
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Samples_Term Source REF.5/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1224/1674 [2:51:24<46:20,  6.18s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1225/1674 [2:51:31<48:16,  6.45s/it]
IGNORED:  extension
IGNORED:  Is Organ
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Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7053
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
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Number of rows removed due to not enough metadata: 30
Returning 2 rows!
Added 2 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS944
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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98.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1226/1674 [2:52:27<2:38:07, 21.18s/it]
FILES
99.mzXML
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Number of rows removed due to not enough metadata: 0
Returning 114 rows!
Added 114 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS707
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 73%|███████▎  | 1227/1674 [2:52:43<2:27:28, 19.80s/it]
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Site
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IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Species
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Variant
IGNORED:  Is Fluid
IGNORED:  keep
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IGNORED:  filename_lower
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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
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IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Sample type
IGNORED:  filepath
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IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 397 rows!
Added 397 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS71
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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MaleVsFemale_NT_Male_Caucasian_21_BRH600197_D.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_21_BRH600201_A.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_21_BRH600201_B.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_21_BRH600202_C.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_21_BRH600202_D.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_21_BRH600204_C.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_21_BRH600204_D.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_22_BRH600190_A.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_22_BRH600190_B.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_22_BRH600194_C.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_22_BRH600194_D.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_22_BRH600198_A.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_22_BRH600198_B.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_22_BRH600199_C.CDF
FILES
MaleVsFemale_NT_Male_Caucasian_22_BRH600199_D.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_20_BRH600206_C.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_20_BRH600206_D.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_20_BRH600207_C.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_20_BRH600207_D.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_20_BRH600208_C.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_20_BRH600208_D.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_21_BRH600191_A.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_21_BRH600191_B.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_21_BRH600205_A.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_21_BRH600205_B.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_21_BRH600209_C.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_21_BRH600209_D.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_22_BRH600195_C.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_22_BRH600195_D.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_22_BRH600200_A.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_22_BRH600200_B.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_22_BRH600203_A.CDF
FILES
MaleVsFemale_NT_Male_Hispanic_22_BRH600203_B.CDF
FILES
MaleVsFemale_UT_Female_Asian_23_BRH600227_A.CDF
FILES
MaleVsFemale_UT_Female_Asian_23_BRH600227_B.CDF
FILES
MaleVsFemale_UT_Female_Asian_24_BRH600219_C.CDF
FILES
MaleVsFemale_UT_Female_Asian_24_BRH600219_D.CDF
FILES
MaleVsFemale_UT_Female_Black_24_BRH600216_A.CDF
FILES
MaleVsFemale_UT_Female_Black_24_BRH600216_B.CDF
FILES
MaleVsFemale_UT_Female_Black_24_BRH600226_C.CDF
FILES
MaleVsFemale_UT_Female_Black_24_BRH600226_D.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_22_BRH600221_C.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_22_BRH600221_D.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600213_C.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600213_D.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600214_A.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600214_B.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600218_A.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600218_B.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600224_C.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600224_D.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600225_C.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600225_D.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600228_A.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_23_BRH600228_B.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600211_A.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600211_B.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600215_C.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600215_D.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600217_C.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600217_D.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600223_A.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600223_B.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600229_A.CDF
FILES
MaleVsFemale_UT_Female_Caucasian_24_BRH600229_B.CDF
FILES
MaleVsFemale_UT_Female_Hispanic_23_BRH600210_A.CDF
FILES
MaleVsFemale_UT_Female_Hispanic_23_BRH600210_B.CDF
FILES
MaleVsFemale_UT_Female_Hispanic_23_BRH600212_C.CDF
FILES
MaleVsFemale_UT_Female_Hispanic_23_BRH600212_D.CDF
FILES
MaleVsFemale_UT_Female_Hispanic_24_BRH600220_A.CDF
FILES
MaleVsFemale_UT_Female_Hispanic_24_BRH600220_B.CDF
FILES
MaleVsFemale_UT_Female_Hispanic_24_BRH600222_C.CDF
FILES
MaleVsFemale_UT_Female_Hispanic_24_BRH600222_D.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_20_BRH600193_A.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_20_BRH600193_B.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_20_BRH600196_A.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_20_BRH600196_B.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600192_A.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600192_B.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600197_C.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600197_D.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600201_A.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600201_B.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600202_C.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600202_D.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600204_C.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_21_BRH600204_D.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_22_BRH600190_A.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_22_BRH600190_B.CDF
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1228/1674 [2:52:51<2:00:50, 16.26s/it]
MaleVsFemale_UT_Male_Caucasian_22_BRH600194_C.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_22_BRH600194_D.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_22_BRH600198_A.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_22_BRH600198_B.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_22_BRH600199_C.CDF
FILES
MaleVsFemale_UT_Male_Caucasian_22_BRH600199_D.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_20_BRH600206_C.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_20_BRH600206_D.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_20_BRH600207_C.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_20_BRH600207_D.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_20_BRH600208_C.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_20_BRH600208_D.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_21_BRH600191_A.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_21_BRH600191_B.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_21_BRH600205_A.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_21_BRH600205_B.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_21_BRH600209_C.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_21_BRH600209_D.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_22_BRH600195_C.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_22_BRH600195_D.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_22_BRH600200_A.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_22_BRH600200_B.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_22_BRH600203_A.CDF
FILES
MaleVsFemale_UT_Male_Hispanic_22_BRH600203_B.CDF
FILES
VaryingVolume_NT_100uL_1.CDF
FILES
VaryingVolume_NT_100uL_2.CDF
FILES
VaryingVolume_NT_100uL_3.CDF
FILES
VaryingVolume_NT_10uL_1.CDF
FILES
VaryingVolume_NT_10uL_2.CDF
FILES
VaryingVolume_NT_10uL_3.CDF
FILES
VaryingVolume_NT_25uL_1.CDF
FILES
VaryingVolume_NT_25uL_2.CDF
FILES
VaryingVolume_NT_25uL_3.CDF
FILES
VaryingVolume_NT_50uL_1.CDF
FILES
VaryingVolume_NT_50uL_2.CDF
FILES
VaryingVolume_NT_50uL_3.CDF
FILES
VaryingVolume_NT_5uL_1.CDF
FILES
VaryingVolume_NT_5uL_2.CDF
FILES
VaryingVolume_NT_5uL_3.CDF
FILES
VaryingVolume_UT_100uL_1.CDF
FILES
VaryingVolume_UT_100uL_2.CDF
FILES
VaryingVolume_UT_100uL_3.CDF
FILES
VaryingVolume_UT_10uL_1.CDF
FILES
VaryingVolume_UT_10uL_2.CDF
FILES
VaryingVolume_UT_10uL_3.CDF
FILES
VaryingVolume_UT_25uL_1.CDF
FILES
VaryingVolume_UT_25uL_2.CDF
FILES
VaryingVolume_UT_25uL_3.CDF
FILES
VaryingVolume_UT_50uL_1.CDF
FILES
VaryingVolume_UT_50uL_2.CDF
FILES
VaryingVolume_UT_50uL_3.CDF
FILES
VaryingVolume_UT_5uL_1.CDF
FILES
VaryingVolume_UT_5uL_2.CDF
FILES
VaryingVolume_UT_5uL_3.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Is Descendant
IGNORED:  Samples_sample treatment protocol
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 235 rows!
Added 235 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS81
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ FT Ultra: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20100412_PL-46.RAW
FILES
20100412_PL-47.RAW
FILES
20100412_PL-48.RAW
FILES
20100412_PL-49.RAW
FILES
20100412_PL-50.RAW
FILES
20100412_PL-51.RAW
FILES
20100412_PL-52.RAW
FILES
20100412_PL-53.RAW
FILES
20100412_PL-54.RAW
FILES
20100412_PL-55.RAW
FILES
20100412_PL-56.RAW
FILES
20100412_PL-57.RAW
FILES
20100412_TAG-46.RAW
FILES
20100412_TAG-47.RAW
FILES
20100412_TAG-48.RAW
FILES
20100412_TAG-49.RAW
FILES
20100412_TAG-50.RAW
FILES
20100412_TAG-51.RAW
FILES
20100412_TAG-52.RAW
FILES
20100412_TAG-53.RAW
FILES
20100412_TAG-54.RAW
FILES
20100412_TAG-55.RAW
FILES
20100412_TAG-56.RAW
FILES
20100412_TAG-57.RAW
FILES
20100415_PL-46.RAW
FILES
20100415_PL-47.RAW
FILES
20100415_PL-48.RAW
FILES
20100415_PL-49.RAW
FILES
20100415_PL-50.RAW
FILES
20100415_PL-51.RAW
FILES
20100415_PL-52.RAW
FILES
20100415_PL-53.RAW
FILES
20100415_PL-54.RAW
FILES
20100415_PL-55.RAW
FILES
20100415_PL-56.RAW
FILES
20100415_PL-57.RAW
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Age at sacrifice
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Total Protein in LD
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Total acylglycerol in LD
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Nutritional status
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 73%|███████▎  | 1229/1674 [2:52:56<1:34:15, 12.71s/it]
 73%|███████▎  | 1230/1674 [2:53:05<1:26:04, 11.63s/it]
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IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS716
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS811
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS717
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Discovery: missing value
  Waters Xevo G2-S QTof: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DESI_VMET2_NEG_mzML
1 V433+22,5 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
10 V526+21,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
100 V468+16 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
101 V627+13 neg3_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
102 V627+22,2 neg 2_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
103 V470+22,3 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
104 V470+13,3 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
105 V665+30,6 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
106 V665+21,6 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
107 V665+12,6 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
108 V338+24,5 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
109 V338+30,5 neg_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
11 V526+31,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
110 V338+15,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
111 V505+24,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
112 V505+15,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
113 V385+30,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
114 V385+22,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
115 V810+15,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
116 V810+32,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
117 V810+21,3 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
118 V403+14 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
119 V403+22 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
12 V337+22,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
120 V403+30 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
121 V384+16 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
122 V384+20 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
123 V384+30 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
124 V687+13 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
125 V687+21,3 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
126 V687+31,3 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
127 V301+22,4 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
128 V301+30,4 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
129 V301+13,4 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
13 V337+15,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
130 V704+31,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
131 V704+21,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
132 V704+16,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
133 V332+13,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
134 V332+20,1 neg_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
135 V332+30,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
136 V433+23,5 neg_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
137 V433+29,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
138 V433+13,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
139 V481+22,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
14 V337+30,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
140 V481+31,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
141 V481+14,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
142 V355+21,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
143 V355+13,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
144 V355+30,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
145 V309+21 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
146 V309+30 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
147 V309+16 neg_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
148 V819+30,4 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
149 V819+23,4 neg_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
15 V472 +16,1 neg 2_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
150 V819+14 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
151 V372+21,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
152 V372+31,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
153 V372+15,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
154 V417+30,4 neg_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
155 V417+12,0 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
156 V417+19,4 neg_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
157 V500+15,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
158 V404+15,5 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
159 V404+20,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
16 V472+30,6 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
160 V404+30,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
162 V475+15,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
163 V475+32,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
164 V648+12,4 neg 2_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
165 V648+30,6 neg 2_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
166 V648+22,6 neg 2_060419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
167 V754+13,3 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
168 V754+30,3 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
169 V754+22,3 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
17 V472+21,1 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
170 V499+33,5 neg_060419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
171 V499+14,5 neg_060419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
172 V499+23,5 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
173 V761+29 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
174 V761+20 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
175 V761+14 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
176 V474 13,4 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
177 V474+20,4 neg_060419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
178 V474+30,4 neg_060419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
179 V695+13,4 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
18 V416+22,6 neg 2_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
180 V695+33,4 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
181 V695+21,4 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
182 V430+20,5 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
183 V430+12,5 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
184 V430 34,5 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
185 V730+15,4 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
186 V730+30,4 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
187 V730+20,4 neg 2_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
188 V466 20,2 neg 2_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
189 V466 31 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
19 V416+15,6 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
190 V466 17,2 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
191 V512+15,5 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
192 V397+14,2 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
193 V397+30,2 neg_060419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
194 V397+20,2 neg 2_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
195 V435 14,6 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
196 V435+21,6 neg 2_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
197 V435+30,6 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
198 V479+30,2 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
199 V479 21,2 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
2 V433+30,5 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
20 V502+19,6 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
200 V479+16,2 neg 2_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
201 V429+30,3 neg_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
202 V429+14,3 neg 2_060419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
203 V429+20,3 neg_060419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
204 V465+14,5 neg 2_060419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
205 V465 29,5 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
206 V465 20,5 neg 2_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
207 V419 14,3 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
208 V419 30,3 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
209 V419 22,3 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
21 V502+28,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
210 V807 16,3 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
211 V807 23,3 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
212 V807 31,3 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
213 V589 15,5 neg 2_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
214 V709 20,1 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
215 V709 32,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
216 V709 16,1 neg 2_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
217 V711 33 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
218 V711 16 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
219 V711 22 neg 2_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
22 V502+15,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
220 V488 20,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
221 V488 31,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
222 V488 17,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
223 V413 13,3 neg 2_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
224 V413 20,3 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
225 V413 30,3 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
226 V316 22,5 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
227 V437 30 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
228 V437 20 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
229 V437 15 neg 2_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
23 V671 +13,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
230 V348 20,1 neg 2_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
231 V348 30,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
232 V348 13,1 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
233 V367 20 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
234 V367 30 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
235 V367 15 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
236 V450 17,1 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
237 V450 30,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
238 V450 20,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
239 V393 23 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
24 V671+30,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
240 V393 30 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
241 V393 14 neg 2_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
242 V702 21,4 neg 2_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
243 V702 31,4 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
244 V702 13,4 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
245 V334+30,6 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
246 V334+16,0 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
247 V334+23,6 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
248 V471+14,1 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
249 V471+22,1 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
25 V671 +21,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
250 V471+34,6 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
251 V399+31,5 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
252 V399+21 neg 2_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
253 V399+15,4 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
254 V320+18,5 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
255 V320+30,5 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
256 V842+13 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
257 V842+20 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
258 V842+30 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
259 V371+15,6 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
26 V338+15,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
260 V473+16 neg 2_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
261 V473+20 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
262 V473+32 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
263 V350+15,6 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
264 V350+23,6 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
265 V350+29,6 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
266 V339+25,5 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
267 V339+19,5 neg 3_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
268 V339+30,4 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
269 V449+23,4 neg 2_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
27 V338+22,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
270 V449+20,4 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
271 V449+31,4 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
272 V411+23,1 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
273 V411+15,1 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
274 V448+20,5 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
275 V448+31,5 neg 2_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
276 V448+12,5 neg 2_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
277 V701+22,1 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
278 V701+33,1 neg 2_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
279 V701+16,1 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
28 V338+30,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
280 V362+15 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
281 V362+31 neg_090419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
282 V362+20 neg_090419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
283 V511+30 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
284 V511+19 neg 2_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
285 V511+14 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
286 V552+19,6 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
287 V552+14,6 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
288 V796+30,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
289 V796+15,3 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
29 V410+32,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
290 V796+21,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
291 V686+14,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
292 V686+34,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
293 V686+21,4 neg_100419 3_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
294 V736+21,5 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
295 V736+13,5 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
296 V736+31,5 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
297 V682+23,1 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
298 V682+35,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
299 V682+14,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
3 V443 +16,5 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
30 V410+21,4 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
300 V453+31,2 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
301 V453+15,2 neg 2_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
302 V453+21,2 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
303 V821+30 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
304 V821+22 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
305 V821+16,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
306 V335+19,1 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
307 V335+30,1 neg 2_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
308 V335+15,1 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
309 V800+21,3 neg 2_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
31 V490 22,5 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
310 V800+15,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
311 V800+32,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
312 V539+20 neg 2_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
313 V539+29 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
314 V539+16 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
315 V487+31,4 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
316 V487+13,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
317 V487+23,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
318 V659+22,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
319 V659+13,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
32 V490+13,5 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
320 V659+30,2 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
321 V469+13,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
322 V469+21,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
323 V469+34,4 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
324 V482+20,3 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
325 V482+31,2 neg 3_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
326 V482+16,3 neg 2_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
328 V387+19,6 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
33 V490 30,5 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
330 V707+22,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
331 V707+13,0 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
332 V707+32,3 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
333 V364+14,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
334 V364+30,2 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
335 V364+19,2 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
336 V364+24,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
337 V668+33,6 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
338 V668+22,5 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
339 V668+13,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
34 V485+30,4 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
340 V663+29,5 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
341 V663+22,5 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
342 V663+13,5 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
343 V850+29,2 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
344 V850+16,2 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
345 V850+21,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
346 V644+13,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
347 V644+30,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
348 V644+20,4 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
349 V464+28,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
35 V485+23,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
350 V464+16 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
351 V464+21,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
352 V363+30,3 neg 2_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
353 V363+19,3 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
354 V363+15,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
355 V438+30,1 neg 2_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
357 V438+22,1 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
359 V347+31,1 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
36 V485+14,4 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
360 V347+24,1 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
361 V374+20,1 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
362 V374+32,1 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
363 V374+14 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
364 V467+13,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
365 V467+32,1 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
366 V467+20,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
367 V315+29,1 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
368 V315+15,1 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
369 V315+23,1 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
37 V345+30,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
370 V486+23,4 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
371 V486+13,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
372 V486+29,4 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
373 V495+21 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
374 V495+30 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
375 V664+22,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
377 V664+14,2 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
378 V426+20,4 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
379 V846+20,3 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
38 V345+16,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
380 V846+15,3 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
381 V519+30,6 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
382 V519+20,6 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
383 V519+15,6 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
384 V361+20,3 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
385 V361+15,4 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
386 V361+30,3 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
387 V811+14,6 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
388 V811+22,6 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
389 V811+33,5 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
39 V345+19,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
390 V743+30,1 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
391 V743+14,1 neg_100419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
392 V743+20,1 neg_100419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
393 V708+15,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
394 V708+19,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
395 V708+32,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
396 V649+23,5 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
397 V649+10,5 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
398 V649+31,5 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
399 V480+29,3 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
4 V809+30 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
40 V658+15,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
400 V480+23,3 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
401 V480+12,5 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
402 V680+22 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
403 V680+35,6 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
404 V680+15 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
405 V780+21,4 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
406 V780+14,4 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
407 V780+32,4 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
408 V492+22,3 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
41 V658+31,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
410 V492+13,3 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
411 V813+15,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
412 V813+21,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
413 V813+30,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
414 V395+13,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
415 V395+22,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
416 V395+30,2 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
417 V745+22,1 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
418 V745+32,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
419 V745+16,1 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
42 V658 23,1 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
420 V678+21 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
421 V678+32 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
422 V678+15 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
423 V491+20,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
424 V491+34,5 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
425 V491+15,3 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
426 V489+23,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
427 V489+29,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
428 V489+13,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
429 V725+33,3 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
43 V753+29,6 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
430 V725+22,3 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
431 V725+14,3 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
432 V483+15,2 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
433 V483+32,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
434 V483+20,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
435 V389+14,3 neg 2_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
437 V389+30,3 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
438 V719+20,6 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
439 V719+14,6 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
44 V753+22,6 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
440 V719+31,6 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
441 V509+22 neg 2_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
442 V509+16 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
443 V509+29 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
444 V738+31,6 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
445 V738+13 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
446 V738+22 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
447 V349+31,2 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
448 V349+14,2 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
449 V349+21,2 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
45 V753+14,6 neg_04042019_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
450 V670+15,1 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
451 V670+20,1 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
452 V670+30,1 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
453 V381+23,3 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
455 V381+30,3 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
456 V843+23,1 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
457 V843+33,5 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
458 V843+13,5 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
459 V454+20,6 neg_110419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
46 V669+22,6 neg_04042019_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
460 V454+28,3 neg 2_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
461 V454+14,6 neg_110419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
462 V501+15,1 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
463 V336+14,4 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
464 V336+21,4 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
465 V336+30,4 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
466 V793+23,4 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
467 V793+31,4 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
468 V793+11,4 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
469 V820+15,1 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
47 V669+12,6 neg_04042019_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
470 V820+22,1 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
471 V820+30,1 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
472 V343+12,2 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
473 V762+30,2 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
474 V762+13,2 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
475 V762+21,2 neg 2_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
476 V834+16,4 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
477 V834+31,4 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
478 V834+20,4 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
479 V798+31,1 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
48 V669+30,6 neg_04042019_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
480 V798+21,1 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
481 V798+14,1 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
482 V463+21,3 neg 2_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
483 V463+29,3 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
484 V463+15,3 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
485 V378+23,5 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
486 V378+30,5 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
487 V378+30,5 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
488 V289+34,2 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
489 V289+16,6 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
49 V706+23 neg 2_04042019_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
491 V703+21,2 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
492 V703+30,2 neg 2_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
493 V703+14,2 neg 2_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
494 V358+20 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
495 V741+24,1 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
496 V741+15,1 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
497 V741+33,1 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
498 V444+20,5 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
499 V444+30,5 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
5 V809+21,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
50 V706+15 neg_04042019_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
500 V444+13,5 neg 2_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
501 V406+13,2 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
502 V508+23,3 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
503 V508+28,6 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
504 V508+13,3 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
505 V330+20 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
506 V330+30 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
507 V507+15 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
508 V507+24 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
509 V507+30 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
51 V706 34 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
510 V766+14,3 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
511 V766+22,3 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
512 V766+32,3 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
513 V547+33,6 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
514 V547+16,1 neg 2_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
515 V787+20,4 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
516 V787+30,2 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
517 V787+12,5 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
518 V756+21,2 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
519 V756+30,2 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
52 V455+30,6 neg_04042019_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
520 V756+15,2 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
521 V801+21 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
522 V801+30 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
523 V801+15,3 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
524 V660+30,5 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
525 V660+23,5 neg_120419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
526 V660+13,5 neg_120419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
528 V360+21,1 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
529 V359+15 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
53 V455+20,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
530 V359+22 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
531 V359+30 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
532 V498+15,6 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
533 V498+19,6 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
534 V498+30,6 neg 2_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
535 V322+31,4 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
536 V322+20,4 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
537 V322+15,4 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
538 V575+31,5 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
539 V575+12,5 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
54 V455+16,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
540 V575+23,3 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
541 V446+21,3 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
542 V446+32,3 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
543 V446+14,3 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
544 V713+33,4 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
545 V713+13,5 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
546 V713+22,5 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
547 V333+30,4 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
548 V333+16,4 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
549 V333+20,4 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
55 V418+13,3 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
550 V689+32,6 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
551 V689+20,6 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
552 V689+14,6 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
553 V841+22 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
554 V841+14 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
555 V841+31 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
556 V493+30,1 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
557 V493+22,1 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
558 V752+19,4 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
559 V752+13,4 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
56 V418+22,3 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
560 V752+29,4 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
561 V329+15,5 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
562 V329+29,5 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
563 V329+23,5 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
564 V503+14,6 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
565 V503+20,6 neg 2_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
566 V461+28 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
567 V461+14 neg 2_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
568 V461+21 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
57 V418+30,3 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
570 V322+ 15 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
571 V346+ 31,5 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
572 V374+ 28,1 neg 2_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
573 V381+ 27,3 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
575 V406+ 17,2 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
576 V413+ 24,3 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
577 V418+ 26,3 neg_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
578 V455+ 24,2 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
579 V505+ 29,6 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
58 V848+16,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
580 V510+ 24,5 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
581 V512+ 28,5 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
582 V717+ 20,6 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
583 V717+ 14,6 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
584 V717+ 29,6 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
585 V718+ 31 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
586 V718+ 20 neg_130419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
587 V718+15,5 neg 2_130419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
59 V848+32,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
6 V809+15,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
60 V848+22,1 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
61 V447+34,4 neg 2_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
62 V447+21,4 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
63 V447+14,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
64 V672+20,3 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
65 V672+13,3 neg 2_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
66 V672 30,3 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
67 V408 21,5 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
68 V408+17,5 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
69 V408+30,5 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
7 V849+20,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
70 V757+12,4 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
71 V757+32,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
72 V757+22,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
73 V380+14,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
74 V380+20,4 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
75 V506+32,6 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
76 V434 29,2 neg_080419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
77 V434 21,2 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
79 V313+14,3 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
8 V849+12,2 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
80 V313+31,3 neg_040419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
81 V313+23,3 neg_040419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
82 V692+23,2 neg_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
83 V692+16,2 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
84 V692+30,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
85 V504+23 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
86 V504+15 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
87 V737+30,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
88 V737+16,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
89 V737+21,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
9 V849 +32,2 neg_080419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
90 V497+24,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
91 V497+32,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
92 V497+14,1 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
93 V666+21,4 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
94 V666+15,2 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
95 V357+20,4 neg_050419 2_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
96 V357+15,5 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
97 V357+30,5 neg_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
98 V468+30 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_NEG_mzML
99 V468+22 neg 2_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
1 V443 +22,5 pos_080419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
10 V526+21,4 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
100 V468+16 pos_050419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
101 V627+13 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
102 V627+22,2 pos 2_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
103 V470+22,3 pos 2_050419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
104 V470+13,3 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
105 V665+30,6 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
106 V665+21,6 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
107 V665+12,6 pos 2_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
108 V338+24,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
109 V338+30,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
11 V526+31,4 pos_040419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
110 V338+15,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
111 V505+24,5 pos_050419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
112 V505+15,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
113 V385+30,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
114 V385+22,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
115 V810+15,2 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
116 V810+32,2 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
117 V810+21,3 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
118 V403+14 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
119 V403+22 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
12 V337+22,1 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
120 V403+30 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
121 V384+16 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
122 V384+20 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
123 V384+30 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
124 V687+13 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
125 V687+21,3 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
126 V687+31,3 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
127 V301+22,4 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
128 V301+30,4 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
129 V301+13,4 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
13 V337+15,1 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
130 V704+31,2 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
131 V704+21,2 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
132 V704+16,2 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
133 V332+13,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
134 V332+20,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
135 V332+30,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
136 V433+23,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
137 V433+29,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
138 V433+13,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
139 V481+22,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
14 V337+30,1 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
140 V481+31,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
141 V481+14,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
142 V355+21,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
143 V355+13,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
144 V355+30,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
145 V309+21 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
146 V309+30 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
147 V309+16 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
148 V819+30,4 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
149 V819+23,4 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
15 V472 +16,1 pos_080419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
150 V819+14 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
151 V372+21,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
152 V372+31,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
153 V372+15,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
154 V417+30,4 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
155 V417+12,0 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
156 V417+19,4 pos_050419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
157 V500+15,2 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
158 V404+15,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
159 V404+20,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
16 V472+30,6 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
160 V404+30,5 pos_050419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
162 V475+15,2 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
163 V475+32,2 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
164 V648+12,4 pos 2_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
165 V648+30,6 pos 2_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
166 V648+22,6 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
167 V754+13,3 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
168 V754+30,3 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
169 V754+22,3 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
17 V472 +21,1 pos_080419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
170 V499+33,5 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
171 V499+14,5 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
172 V499+23,5 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
173 V761+29 pos 2_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
174 V761+20 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
175 V761+14 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
176 V474+13,4 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
177 V474+20,4 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
178 V474+30,4 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
179 V695+13,4 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
18 V416+22,6 pos_040419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
180 V695 33,4 pos_080419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
181 V695+21,4 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
182 V430+20,5 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
183 V430+12,5 pos_060419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
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61 V447+34,4 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
62 V447+21,4 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
63 V447+14,4 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
64 V672+20,3 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
65 V672+13,3 pos 2_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
66 V672 30,3 pos_080419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
67 V408 21,5 pos_080419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
68 V408+17,5 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
69 V408+30,5 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
7 V849+20,2 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
70 V757+12,4 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
71 V757+32,4 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
72 V757+22,4 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
73 V380+14,4 pos 2_040419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
74 V380+20,4 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
75 V506+32,6 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
76 V434+29,2 pos_040419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
77 V434 21,2 pos_080419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
79 V313+14,3 pos_040419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
8 V849+12,2 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
80 V313+31,3 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
81 V313+23,3 pos_040419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
82 V692+23,2 pos_050419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
83 V692+16,2 pos 2_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
84 V692+30,2 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
85 V504+23 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
86 V504+15 pos 2_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
87 V737+30,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
88 V737+16,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
89 V737+21,5 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
9 V849 +32,2 pos_080419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
90 V497+24,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
91 V497+32,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
92 V497+14,1 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
93 V666+21,4 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
94 V666+15,2 pos_050419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
95 V357+20,4 pos_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
96 V357+15,5 pos 2_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
97 V357+30,5 pos_050419 2_Recal.mzML
FILES
DESI_VMET2_POS_mzML
98 V468+30 pos 2_050419_Recal.mzML
FILES
DESI_VMET2_POS_mzML
99 V468+22 pos 2_050419_Recal.mzML
FILES
DESI_VMET_NEG_mzML
001 pr492_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
002 pr426_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
005 pr554_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
006 q326_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
008 pr520_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
009 m38_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
012 m38_ftms neg2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
013 M71_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
016 pr412_ftms neg2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
018 q367_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
019 pr417_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
020 q379_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
022 ql003_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
023 pr414_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
024 q352_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
026 q361_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
028 m110_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
029 ql005_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
030 q379_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
032 pr480_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
035 m90_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
036 pr419_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
037 m88_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
038 q365_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
039 pr434_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
040 ml003_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
041 ml004_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
042 m74_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
043 q349_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
044 pr431_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
045 pr493_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
048 q322_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
049 m55_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
050 q291_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
051 q362_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
053 m47_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
055 m111_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
057 q370_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
059 pr585_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
061 pr426_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
064 pr490_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
066 m70_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
067 m81_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
068 p428_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
069 m88_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
070 pr560_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
071 m40_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
072 m72_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
073 m51_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
074 m42_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
075 pr585_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
076 pr491_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
077 m86_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
078 m99_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
080 m110_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
081 m82_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
083 m111_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
085 M79_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
089 PR544_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
090 Q355_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
091 PR548_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
092 Q287_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
094 Q352_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
095 Q324_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
096 M82_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
097 m67_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
098 q316_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
099 m99_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
100 pr491_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
102 q360_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
103 m106_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
105 m73_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
108 pr585_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
109 q362_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
111 q369_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
112 q373_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
115 q373_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
116 ql017_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
118 q371_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
119 q377_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
123 m64_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
124 m67_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
125 pr416_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
129 m40_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
131 PR527_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
132 M50_FTMS NEG2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
134 PR424_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
135 Q295_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
136 Q367_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
139 Q314_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
140 Q369_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
142 M102_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
143 PR417_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
145 M35_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
146 PR544_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
147 M39_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
149 M37_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
150 PR 503_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
151 Q378_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
152 M43_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
153 M67_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
154 Q378_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
157 PR416_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
161 Q322_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
164 Q373_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
165 Q307_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
166 M41_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
167 Q366_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
168 PR535_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
169 PR475_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
170 M64_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
171 M52_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
172 PR517_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
173 PR404_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
174 Q297_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
175 Q376_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
176 M94_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
177 M93_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
178 PR513_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
179 PR429_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
181 M39_FTMS NEG2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
185 Q378_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
186 QL001_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
187 Q285_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
188 Q375_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
189 M107_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
190 PR525_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
191 Q351_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
192 QL008_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
195 M50_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
196 QL013_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
197 Q348_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
199 M34_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
200 M70_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
201 Q313_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
202 M87_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
203 ML006_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
204 PR459_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
205 Q371_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
206 PR509_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
207 ML005_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
208 M34_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
209 M41_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
213 QL010_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
215 Q352_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
216 PR533_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
217 PR429_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
218 PR503_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
219 Q296_FTMS NEG 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
221 M51_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
222 Q376_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
224 PR548_FTMS NEG2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
226 M103_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
227 M38_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
229 PR509_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
230 ML007_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
231 Q376_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
232 M55_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
233 M99_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
234 Q37_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
235 PR463_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
236 M32_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
237 Q373_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
238 Q369_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
239 Q358_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
240 QL002_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
241 PR434_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
242 PR421_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
243 M65_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
245 Q324_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
248 QL005_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
249 PR419_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
250 Q359_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
253 PR547_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
257 QL006_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
258 PR480_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
259 PR545_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
260 Q296_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
262 M50_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
264 M86_FTMS NEG2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
265 PR404_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
266 QL012_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
267 Q371_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
268 m40_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
269 m79_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
270 ql013a_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
271 m87_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
272 pr525_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
274 pr519_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
277 ql001_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
279 pr509_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
280 m32_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
281 pr586_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
283 pr483_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
284 q377_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
285 m35_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
286 q349_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
287 q355_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
288 pr416_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
290 m64_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
291 m39_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
292 m106_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
293 pr430_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
295 pr491_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
296 m76_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
297 q370_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
298 pr424_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
299 q285_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
300 m103_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
302 q355_ftms neg (2)_Recal.mzML
FILES
DESI_VMET_NEG_mzML
303 m80_ftms neg (2)_Recal.mzML
FILES
DESI_VMET_NEG_mzML
304 pr426_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
305 m107_ftms neg (2)_Recal.mzML
FILES
DESI_VMET_NEG_mzML
306 pr593_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
307 pr497_ftms neg (2)_Recal.mzML
FILES
DESI_VMET_NEG_mzML
308 q292_ftms neg (2)_Recal.mzML
FILES
DESI_VMET_NEG_mzML
309 q305_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
311 ql006C_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
313 m80_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
315 q353_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
316 ql003a_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
318 q355_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
319 pr417_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
322 q370_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
323 q326_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
325 pr480_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
327 m66_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
328 m70_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
330 M93_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
331 M98_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
332 Q533_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
334 Q376_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
337 M102_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
340 Q371_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
341 M42_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
342 PR459_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
343 M81_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
344 q377_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
345 pr418_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
346 m84_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
348 q362_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
350 pr476_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
351 q309_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
352 pr593_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
353 m47_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
354 m76_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
356 q363_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
357 pr584_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
358 m78_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
359 pr434_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
360 ql016_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
361 pr422_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
362 q324_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
363 pr517_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
365 m103_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
366 m38_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
367 m71_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
369 pr431_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
370 pr490_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
371 pr501_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
372 q370_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
374 m30_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
375 pr463_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
376 m80_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
377 pr419_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
378 pr492_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
380 m102_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
383 m72_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
384 ml023_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
386 pr476_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
388 ml023_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
389 m82_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
390 m43_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
391 m37_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
394 q294_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
395 m86_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
396 m66_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
397 pr404_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
399 q359_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
400 pr531_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
402 pr423_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
404 m66_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
406 m107_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
407 pr475_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
408 pr533_ftms neg 3_Recal.mzML
FILES
DESI_VMET_NEG_mzML
409 ql001_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
410 pr412_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
411 m79_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
412 m76_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
413 m41_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
416 q375_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
417 m52_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
419 PR520_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
420 PR499_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
421 Q326_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
422 PR560_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
423 QL001_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
424 PR525_FTMS NEG2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
425 PR492_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
429 M81_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
432 PR466_FTMS NEG2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
433 PR404_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
434 ML011_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
435 Q321_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
437 M41_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
438 M90_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
439 PR418_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
441 M106_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
444 M71_FTMS NEG2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
445 Q369_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
447 M80_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
448 Q368_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
449 M52_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
452 ML011_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
453 ML007_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
454 q307_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
455 pr522_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
457 m65_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
458 m42_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
460 pr422_ftms neg2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
461 pr429_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
462 m47_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
463 pr593_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
464 q297_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
465 m74_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
466 m90_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
467 q349_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
469 q376_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
470 m50_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
471 ml006_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
472 pr585_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
473 q307_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
475 q294_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
476 ql012_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
477 q358_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
479 pr423_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
480 m31_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
481 q365_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
482 m37_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
483 pr466_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
484 pr581_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
485 m64_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
486 pr430_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
487 M50_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
488 QL002_FTMS NEG2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
490 Q379_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
491 PR457_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
492 M110_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
493 Q294_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
494 M74_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
495 PR548_FTMS NEG2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
497 Q365_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
499 Q355_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
500 PR418_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
503 Q297_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
506 V126_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
507 Q369_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
510 PR475_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
512 PR535_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
513 M93_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
514 Q379_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
515 Q334_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
518 PR417_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
519 QL014_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
520 PR424_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
521 PR476_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
522 PR586_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
523 PR491_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
524 PR496_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
526 M73_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
528 M40_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
530 PR497_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
531 M106_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
532 PR496_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
534 M51_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
535 Q321_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
537 Q321_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
538 M52_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
540 M35_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
541 M42_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
544 PR476_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
545 Q379_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
549 QL008_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
550 M43_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
551 PR586_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
552 M39_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
553 M37_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
554 PR501_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
555 PR423_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
556 ML004_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
557 M38_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
559 Q366_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
561 QL011_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
562 PR416_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
564 PR522_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
566 Q309_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
567 Q371_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
568 PR535_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
569 PR544_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
571 Q365_FTMS NEG_Recal.mzML
FILES
DESI_VMET_NEG_mzML
577 pr533_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
578 m84_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
581 q314_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
583 m103_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
584 q353_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
586 m87_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
587 q360_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
588 pr414_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
590 pr428_FTMS neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
591 m86_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
594 m79_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
596 q322_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
597 q353_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
599 q360_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
600 pr513_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
602 m102_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
603 pr581_FTMS neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
604 pr582_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
606 m82_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
607 q366_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
608 pr434_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
609 pr522_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
610 m52_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
612 q368_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
613 ql003_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
614 pr582_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
615 m42_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
616 q352_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
617 q313_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
618 ql010_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
619 ql011_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
620 q309_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
622 m67_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
624 q358_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
627 m31_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
628 q370_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
629 m78_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
630 m94_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
631 m70_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
632 m106_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
633 pr490_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
636 pr499_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
638 q359_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
639 pr423_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
640 pr501_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
642 pr422_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
645 pr520_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
646 ql010b_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
647 pr428_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
649 ql 104_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
650 ml025a_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
652 pr493_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
653 qc013 31 6_ftms neg_Recal.mzML
FILES
DESI_VMET_NEG_mzML
654 qc013 28 6_ftms neg 2_Recal.mzML
FILES
DESI_VMET_NEG_mzML
655 m65_ftms neg_Recal.mzML
FILES
DESI_VMET_POS_mzML
001 pr492_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
002 pr426_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
005 pr554_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
006 q326_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
008 pr520_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
009 m38_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
012 m38_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
013 M71_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
016 pr412_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
018 q367_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
019 pr417_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
020 q379_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
022 ql003_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
023 pr414_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
024 q352_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
026 q361_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
028 m110_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
029 ql005_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
030 q379_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
032 pr480_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
035 m90_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
036 pr419_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
037 m88_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
038 q365_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
039 pr434_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
040 ml003_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
041 ml004_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
042 m74_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
043 q349_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
044 pr431_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
045 pr493_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
048 q322_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
049 m55_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
050 q291_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
051 q362_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
053 m47_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
055 m111_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
057 q370_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
059 pr585_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
061 pr426_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
064 pr490_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
066 m70_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
067 m81_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
068 p428_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
069 m88_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
070 pr560_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
071 m40_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
072 m72_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
073 m51_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
074 m42_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
075 pr585_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
076 pr491_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
077 m86_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
078 m99_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
080 m110_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
081 m82_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
083 m111_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
085 M79_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
089 PR544_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
090 Q355_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
091 PR548_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
092 Q287_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
094 Q352_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
095 Q324_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
096 M82_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
097 m67_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
098 q316_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
099 m99_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
100 pr491_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
102 q360_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
103 m106_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
105 m73_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
108 pr585_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
109 q362_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
111 q369_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
112 q373_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
115 q373_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
116 ql017_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
118 q371_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
119 q377_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
123 m64_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
124 m67_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
125 pr416_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
129 m40_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
131 PR527_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
132 M50_FTMS POS2_Recal.mzML
FILES
DESI_VMET_POS_mzML
134 PR424_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
135 Q295_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
136 Q367_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
139 Q314_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
140 Q369_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
142 M102_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
143 PR417_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
145 M35_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
146 PR544_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
147 M39_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
149 M37_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
150 PR 503_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
151 Q378_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
152 M43_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
153 M67_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
154 Q378_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
157 PR416_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
161 Q322_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
164 Q373_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
165 Q307_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
166 M41_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
167 Q366_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
168 PR535_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
169 PR475_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
170 M64_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
171 M52_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
172 PR517_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
173 PR404_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
174 Q297_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
175 Q376_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
176 M94_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
177 M93_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
178 PR513_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
179 PR429_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
181 M39_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
185 Q378_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
186 QL001_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
187 Q285_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
188 Q375_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
189 M107_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
190 PR525_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
191 Q351_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
192 QL008_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
195 M50_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
196 QL013_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
197 Q348_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
199 M34_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
200 M70_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
201 Q313_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
202 M87_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
203 ML006_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
204 PR459_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
205 Q371_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
206 PR509_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
207 ML005_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
208 M34_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
209 M41_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
213 QL010_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
215 Q352_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
216 PR533_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
217 PR429_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
218 PR503_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
219 Q296_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
221 M51_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
222 Q376_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
224 PR548_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
226 M103_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
227 M38_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
229 PR509_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
230 ML007_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
231 Q376_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
232 M55_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
233 M99_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
234 Q37_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
235 PR463_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
236 M32_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
237 Q373_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
238 Q369_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
239 Q358_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
240 QL002_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
241 PR434_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
242 PR421_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
243 M65_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
245 Q324_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
248 QL005_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
249 PR419_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
250 Q359_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
253 PR547_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
257 QL006_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
258 PR480_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
259 PR545_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
260 Q296_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
262 M50_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
264 M86_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
265 PR404_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
266 QL012_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
267 Q371_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
268 m40_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
269 m79_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
270 ql013a_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
271 m87_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
272 pr525_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
274 pr519_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
277 ql001_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
279 pr509_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
280 m32_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
281 pr586_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
283 pr483_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
284 q377_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
285 m35_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
286 q349_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
287 q355_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
288 pr416_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
290 m64_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
291 m39_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
292 m106_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
293 pr430_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
295 pr491_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
296 m76_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
297 q370_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
298 pr424_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
299 q285_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
300 m103_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
302 q355_ftms pos (2)_Recal.mzML
FILES
DESI_VMET_POS_mzML
303 m80_ftms pos (2)_Recal.mzML
FILES
DESI_VMET_POS_mzML
304 pr426_ftms pos (2)_Recal.mzML
FILES
DESI_VMET_POS_mzML
305 m107_ftms pos (2)_Recal.mzML
FILES
DESI_VMET_POS_mzML
306 pr593_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
307 pr497_ftms pos (2)_Recal.mzML
FILES
DESI_VMET_POS_mzML
308 q292_ftms pos (2)_Recal.mzML
FILES
DESI_VMET_POS_mzML
309 q305_ftms pos (2)_Recal.mzML
FILES
DESI_VMET_POS_mzML
311 ql006C_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
313 m80_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
315 q353_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
316 ql003a_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
318 q355_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
319 pr417_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
322 q370_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
323 q326_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
325 pr480_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
327 m66_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
328 m70_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
330 M93_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
331 M98_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
332 Q533_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
334 Q376_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
337 M102_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
340 Q371_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
341 M42_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
342 PR459_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
343 M81_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
344 q377_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
345 pr418_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
346 m84_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
348 q362_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
350 pr476_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
351 q309_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
352 pr593_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
353 m47_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
354 m76_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
356 q363_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
357 pr584_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
358 m78_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
359 pr434_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
360 ql016_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
361 pr422_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
362 q324_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
363 pr517_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
365 m103_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
366 m38_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
367 m71_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
369 pr431_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
370 pr490_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
371 pr501_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
372 q370_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
374 m30_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
375 pr463_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
376 m80_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
377 pr419_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
378 pr492_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
380 m102_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
383 m72_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
384 ml023_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
386 pr476_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
388 ml023_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
389 m82_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
390 m43_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
391 m37_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
394 q294_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
395 m86_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
396 m66_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
397 pr404_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
399 q359_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
400 pr531_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
402 pr423_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
404 m66_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
406 m107_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
407 pr475_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
408 pr533_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
409 ql001_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
410 pr412_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
411 m79_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
412 m76_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
413 m41_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
416 q375_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
417 m52_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
419 PR520_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
420 PR499_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
421 Q326_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
422 PR560_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
423 QL001_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
424 PR525_FTMS POS2_Recal.mzML
FILES
DESI_VMET_POS_mzML
425 PR492_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
429 M81_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
432 PR466_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
433 PR404_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
434 ML011_FTMS POS2_Recal.mzML
FILES
DESI_VMET_POS_mzML
435 Q321_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
437 M41_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
438 M90_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
439 PR418_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
441 M106_FTMS POS2_Recal.mzML
FILES
DESI_VMET_POS_mzML
444 M71_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
445 Q369_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
447 M80_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
448 Q368_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
449 M52_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
452 ML011_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
453 ML007_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
454 q307_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
455 pr522_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
457 m65_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
458 m42_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
460 pr422_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
461 pr429_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
462 m47_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
463 pr593_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
464 q297_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
465 m74_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
466 m90_ftms pos 3_Recal.mzML
FILES
DESI_VMET_POS_mzML
467 q349_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
469 q376_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
470 m50_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
471 ml006_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
472 pr585_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
473 q307_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
475 q294_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
476 ql012_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
477 q358_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
479 pr423_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
480 m31_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
481 q365_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
482 m37_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
483 pr466_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
484 pr581_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
485 m64_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
486 pr430_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
487 M50_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
488 QL002_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
490 Q379_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
491 PR457_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
492 M110_FTMS POS2_Recal.mzML
FILES
DESI_VMET_POS_mzML
493 Q294_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
494 M74_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
495 PR548_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
497 Q365_FTMS POS3_Recal.mzML
FILES
DESI_VMET_POS_mzML
499 Q355_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
500 PR418_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
503 Q297_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
506 V126_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
507 Q369_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
510 PR475_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
512 PR535_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
513 M93_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
514 Q379_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
515 Q334_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
518 PR417_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
519 QL014_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
520 PR424_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
521 PR476_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
522 PR586_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
523 PR491_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
524 PR496_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
526 M73_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
528 M40_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
530 PR497_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
531 M106_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
532 PR496_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
535 Q321_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
537 Q321_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
538 M52_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
540 M35_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
541 M42_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
544 PR476_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
545 Q379_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
549 QL008_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
550 M43_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
551 PR586_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
552 M39_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
553 M37_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
554 PR501_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
555 PR423_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
556 ML004_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
557 M38_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
559 Q366_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
561 QL011_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
562 PR416_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
564 PR522_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
566 Q309_FTMS POS2_Recal.mzML
FILES
DESI_VMET_POS_mzML
567 Q371_FTMS POS2_Recal.mzML
FILES
DESI_VMET_POS_mzML
568 PR535_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
569 PR544_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
571 Q365_FTMS POS_Recal.mzML
FILES
DESI_VMET_POS_mzML
577 pr533_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
578 m84_FTMS pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
581 q314_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
583 m103_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
584 q353_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
586 m87_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
587 q360_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
588 pr414_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
590 pr428_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
591 m86_FTMS pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
594 m79_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
596 q322_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
597 q353_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
599 q360_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
600 pr513_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
602 m102_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
603 pr581_FTMS pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
604 pr582_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
606 m82_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
607 q366_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
608 pr434_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
609 pr522_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
610 m52_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
612 q368_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
613 ql003_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
614 pr582_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
615 m42_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
616 q352_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
617 q313_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
618 ql010_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
619 ql011_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
620 q309_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
622 m67_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
624 q358_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
627 m31_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
628 q370_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
629 m78_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
630 m94_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
631 m70_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
632 m106_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
633 pr490_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
636 pr499_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
638 q359_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
639 pr423_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
640 pr501_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
642 pr422_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
645 pr520_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
646 ql010b_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
647 pr428_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
649 ql 104_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
650 ml025a_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
652 pr493_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
653 qc013 31 6_ftms pos 2_Recal.mzML
FILES
DESI_VMET_POS_mzML
654 qc013 28 6_ftms pos_Recal.mzML
FILES
DESI_VMET_POS_mzML
655 m65_ftms pos_Recal.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1E1_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD01.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD02.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD03.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD04.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD05.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD06.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD07.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD08.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD09.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD10.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD11.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD12.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD13.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD14.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD15.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD16.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD17.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD18.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD19.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD20.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD21.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD22.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD23.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD24.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD25.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD26.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD27.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD28.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD29.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD30.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD31.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD32.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD33.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD34.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD35.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD36.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD37.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD38.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD39.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD40.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD41.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD42.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD43.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD44.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD45.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD46.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD47.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD48.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD49.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD50.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD51.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD52.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD53.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD54.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD55.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD56.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD57.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD58.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD59.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD60.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD61.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD62.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD63.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD64.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD65.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD66.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD67.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD68.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD69.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD70.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD71.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD72.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD73.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD74.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD75.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD76.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD77.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD78.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD79.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD80.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD81.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD82.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD83.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD84.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD85.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD86.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD87.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD88.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD89.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD90.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD91.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_B1SRD92.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W01.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W02.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W05.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W06.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W08.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W09.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W11_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W12_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W14.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W15.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W18.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W20.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W21.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W22.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W23_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W24_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W26.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W27.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W28.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W30.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W32.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W33.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W34.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W35_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W36_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W38.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W41.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W42.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W43.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W44.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W45.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W46.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W47_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W48_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W49.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W50.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W51.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W52.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W53.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W56.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W57.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W59_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W60_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W61.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W63.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W65.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W67.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W69.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W71_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W72_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W73.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W76.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W78.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W79.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W80.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W81.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W82.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W83_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W84_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W85.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W86.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W87.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W88.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W89.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W90.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W91.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W92.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W94.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W95_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T1W96_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W01.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W03.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W05.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W09.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W10.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W11_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W12_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W13.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W14.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W16.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W17.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W19.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W20.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W21.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W22.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W23_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W24_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W26.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W27.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W29.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W32.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W33.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W35_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W36_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W37.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W38.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W41.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W42.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W45.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W47_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W48_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W51.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W52.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W53.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W57.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W59_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W60_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W61.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W62.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W64.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W65.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W66.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W69.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W70.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W71_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W72_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W74.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W75.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W77.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W78.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W81.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W82.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W83_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W84_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W85.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W86.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W87.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W88.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W91.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W95_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T2W96_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W01.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W05.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W06.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W07.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W08.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W09.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W11_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W12_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W13.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W14.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W15.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W16.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W17.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W18.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W19.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W20.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W21.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W22.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W23_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W24_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W26.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W30.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W31.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W32.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W33.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W34.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W35_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W36_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W38.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W39.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W42.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W43.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W44.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W46.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W47_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W48_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W49.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W50.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W51.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W52.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W53.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W55.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W56.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W57.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W58.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W59_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W60_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W64.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W66.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W67.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W68.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W69.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W70.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W71_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W72_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W75.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W77.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W79.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W80.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W82.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W83_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W84_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W85.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W86.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W87.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W88.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W89.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W90.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W91.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W92.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W93.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W94.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W95_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T3W96_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W01.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W02.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W03.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W04.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W06.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W09.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W10.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W11_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W12_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W13.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W16.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W20.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W21.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W22.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W23_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W24_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W25.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W27.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W29.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W30.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W31.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W32.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W33.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W34.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W35_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W36_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W37.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W38.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W39.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W41.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W44.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W46.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W47_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W48_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W49.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W50.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W52.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W53.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W55.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W56.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W57.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W59_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W60_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W61.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W62.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W63.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W64.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W66.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W71_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W72_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W83_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W84_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W95_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T4W96_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W11_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W12_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W23_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W24_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W35_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W36_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W47_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W48_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W59_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W60_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W70.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W71_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W72_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W83_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W84_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W95_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T5W96_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W11_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W12_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W23_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W24_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W35_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W36_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W47_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W48_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W59_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W60_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W71_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W72_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W83_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W84_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W95_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T6W96_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W11_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W12_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W22.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W23_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W24_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W35_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W36_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W47_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W48_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W59_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W60_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W71_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W72_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W83_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W84_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W95_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T7W96_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W11_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W12_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W23_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W24_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W35_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W36_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W47_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W48_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W59_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W60_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W71_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W72_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W83_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W84_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W95_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T8W96_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T9W11_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T9W12_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T9W23_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T9W24_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T9W35_MR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T9W36_SR.mzML
FILES
Swabs_HNEG_mzML
MacIntryre_HNEG_CPCTOF02_T9W47_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1E1_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD01.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD02.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD03.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD04.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD05.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD06.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD07.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD08.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD09.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD10.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD11.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD12.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD13.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD14.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD15.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD16.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD17.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD18.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD19.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD20.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD21.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD22.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD23.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD24.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD25.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD26.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD27.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD28.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD29.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD30.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD31.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD32.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD33.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD34.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD35.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD36.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD37.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD38.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD39.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD40.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD41.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD42.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD43.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD44.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD45.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD46.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD47.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD48.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD49.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD50.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD51.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD52.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD53.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD54.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD55.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD56.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD57.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD58.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD59.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD60.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD61.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD62.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD63.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD64.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD65.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD66.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD67.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD68.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD69.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD70.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD71.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD72.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD73.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD74.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD75.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD76.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD77.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD78.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD79.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD80.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD81.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD82.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD83.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD84.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD85.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD86.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD87.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD88.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD89.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD90.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD91.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_B1SRD92.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W01.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W02.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W05.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W06.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W08.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W09.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W11_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W12_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W14.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W15.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W18.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W20.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W21.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W22.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W23_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W24_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W26.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W27.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W28.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W30.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W32.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W33.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W34.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W35_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W36_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W38.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W41.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W42.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W43.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W44.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W45.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W46.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W47_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W48_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W49.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W50.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W51.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W53.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W54.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W56.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W57.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W59_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W60_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W61.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W63.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W65.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W67.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W69.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W71_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W72_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W73.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W76.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W78.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W79.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W80.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W81.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W82.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W83_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W84_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W85.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W86.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W87.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W88.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W89.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W90.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W91.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W92.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W94.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W95_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T1W96_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W01.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W03.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W05.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W09.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W10.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W11_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W12_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W13.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W14.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W16.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W17.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W18.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W19.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W20.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W21.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W22.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W23_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W24_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W26.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W27.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W29.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W32.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W33.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W35_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W36_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W37.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W38.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W41.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W42.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W44.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W45.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W47_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W48_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W51.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W52.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W53.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W57.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W59_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W60_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W61.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W62.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W64.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W65.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W66.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W69.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W70.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W71_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W72_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W74.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W75.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W77.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W78.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W79.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W81.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W82.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W83_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W84_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W85.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W86.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W87.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W88.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W91.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W95_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T2W96_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W01.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W04.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W05.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W06.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W07.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W08.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W09.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W10.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W11_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W12_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W13.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W14.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W15.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W16.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W17.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W18.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W19.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W20.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W21.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W22.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W23_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W24_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W26.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W30.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W31.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W32.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W33.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W34.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W35_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W36_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W38.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W39.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W42.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W43.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W44.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W46.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W47_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W48_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W49.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W50.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W51.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W52.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W53.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W55.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W56.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W57.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W58.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W59_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W60_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W64.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W66.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W67.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W68.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W69.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W70.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W71_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W72_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W74.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W75.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W77.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W79.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W80.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W82.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W83_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W84_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W85.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W86.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W87.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W88.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W89.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W90.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W91.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W92.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W93.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W94.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W95_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T3W96_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W01.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W02.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W03.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W04.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W06.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W09.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W10.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W11_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W12_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W13.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W16.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W20.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W21.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W22.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W23_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W24_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W25.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W27.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W28.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W29.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W30.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W31.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W32.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W33.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W34.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W35_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W36_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W37.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W38.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W39.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W41.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W44.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W46.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W47_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W48_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W49.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W50.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W52.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W53.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W54.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W55.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W56.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W57.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W59_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W60_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W61.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W62.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W63.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W64.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W66.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W71_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W72_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W83_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W84_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W95_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T4W96_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W11_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W12_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W23_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W24_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W35_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W36_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W47_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W48_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W59_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W60_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W70.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W71_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W72_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W83_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W84_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W95_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T5W96_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W11_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W12_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W23_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W24_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W35_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W36_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W47_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W48_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W59_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W60_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W71_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W72_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W83_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W84_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W95_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T6W96_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W11_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W12_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W23_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W24_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W35_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W36_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W47_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W48_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W59_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W60_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W71_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W72_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W83_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W84_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W95_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T7W96_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W11_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W12_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W23_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W24_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W35_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W36_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W47_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W48_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W59_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W60_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W71_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W72_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W83_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W84_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W95_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T8W96_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T9W11_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T9W12_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T9W14.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T9W23_MR.mzML
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Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T9W24_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T9W35_MR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T9W36_SR.mzML
FILES
Swabs_LNEG_mzML
MacIntyre_LNEG_CPCTOF02_T9W47_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1E1_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD01.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD02.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD03.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD04.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD05.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD06.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD07.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD08.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD09.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD10.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD11.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD12.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD13.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD14.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD15.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD16.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD17.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD18.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD19.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD20.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD21.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD22.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD23.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD24.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD25.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD26.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD27.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD28.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD29.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD30.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD31.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD32.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD33.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD34.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD35.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD36.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD37.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD38.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD39.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD40.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD41.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD42.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD43.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD44.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD45.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD46.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD47.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD48.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD49.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD50.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD51.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD52.mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD56.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD57.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD58.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD59.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD60.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD61.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD62.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD63.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD64.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD65.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD66.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD67.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD68.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD69.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD70.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD71.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD72.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD73.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD74.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD75.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD76.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD77.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD78.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD79.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD80.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD81.mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD85.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD86.mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD88.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD89.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD90.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD91.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_B1SRD92.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W01.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W02.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W05.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W08.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W09.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W11_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W12_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W14.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W15.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W18.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W20.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W21.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W22.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W23_MR.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W24_SR.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W26.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W27.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W28.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W30.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T1W32.mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W75.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W77.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W78.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W79.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W81.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W82.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W83_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W84_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W85.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W86.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W87.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W88.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W91.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W95_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T2W96_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W01.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W04.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W05.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W06.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W07.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W08.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W09.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W11_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W12_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W13.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W14.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W15.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W16.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W17.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W18.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W19.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W20.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W21.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W22.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W23_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W24_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W26.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W30.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W31.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W32.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W33.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W34.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W35_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W36_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W37.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W38.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W39.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W42.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W43.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W44.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W46.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W47_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W48_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W50.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W51.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W52.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W53.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W55.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W56.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W57.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W58.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W59_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W60_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W64.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W66.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W67.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W68.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W69.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W70.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W71_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W72_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W74.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W75.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W77.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W79.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W80.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W82.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W83_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W84_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W85.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W86.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W87.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W88.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W89.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W90.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W91.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W92.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W93.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W94.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W95_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T3W96_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W01.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W02.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W03.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W04.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W06.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W09.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W10.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W11_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W12_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W13.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W16.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W20.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W21.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W22.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W23_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W24_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W25.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W27.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W29.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W30.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W31.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W32.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W33.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W34.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W35_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W36_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W37.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W38.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W39.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W41.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W44.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W46.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W47_MR.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W48_SR.mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W61.mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W63.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W66.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W71_MR.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W72_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W83_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W84_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W95_MR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T4W96_SR.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T5W11_MR.mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T5W24_SR.mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T5W35_MR.mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
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Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T9W36_SR.mzML
FILES
Swabs_LPOS_mzML
MacIntyre_LPOS_CPCTOF01_T9W47_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1E1_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD01.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD02.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD03.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD04.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD05.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD06.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD07.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD08.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD09.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD10.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD11.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD12.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD13.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD14.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD15.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD16.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD17.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD18.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD19.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD20.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD21.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD22.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD23.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD24.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD25.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD26.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD27.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD28.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD29.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD30.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD31.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD32.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD33.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD34.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD35.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD36.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD37.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD38.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD39.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD40.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD41.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD42.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD43.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD44.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD45.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD46.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD47.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD48.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD49.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD50.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD51.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD52.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD53.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD54.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD55.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD56.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD57.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD58.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD59.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD60.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD61.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD62.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD63.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD64.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD65.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD66.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD67.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD68.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD69.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD70.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD71.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD72.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD73.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD74.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD75.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD76.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD77.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD78.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD79.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD80.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD81.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD82.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD83.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD84.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD85.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD86.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD87.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD88.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD89.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD90.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD91.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_B1SRD92.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W01.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W02.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W05.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W06.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W08.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W09.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W11_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W12_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W14.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W15.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W18.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W20.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W21.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W22.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W23_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W24_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W26.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W27.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W28.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W30.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W32.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W33.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W34.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W35_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W36_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W38.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W41.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W42.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W43.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W44.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W45.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W46.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W47_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W48_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W49.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W50.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W51.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W52.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W53.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W56.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W57.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W59_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W60_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W61.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W63.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W65.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W67.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W69.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W71_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W72_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W73.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W76.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W78.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W79.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W80.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W81.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W82.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W83_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W84_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W85.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W86.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W87.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W88.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W89.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W90.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W91.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W92.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W94.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W95_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T1W96_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W01.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W03.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W05.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W09.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W10.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W11_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W12_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W13.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W14.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W16.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W17.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W18.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W19.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W20.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W21.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W22.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W23_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W24_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W26.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W27.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W29.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W32.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W33.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W35_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W36_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W37.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W38.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W41.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W42.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W44.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W45.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W47_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W48_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W51.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W52.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W53.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W57.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W59_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W60_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W61.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W62.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W64.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W65.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W66.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W69.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W70.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W71_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W72_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W74.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W75.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W77.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W78.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W79.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W81.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W82.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W83_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W84_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W85.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W86.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W87.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W88.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W91.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W95_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T2W96_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W01.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W04.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W05.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W06.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W07.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W08.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W09.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W11_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W12_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W13.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W14.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W15.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W16.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W17.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W18.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W19.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W20.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W21.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W22.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W23_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W24_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W26.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W30.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W31.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W32.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W33.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W34.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W35_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W36_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W37.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W38.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W39.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W42.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W43.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W44.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W46.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W47_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W48_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W49.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W50.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W51.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W52.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W53.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W55.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W56.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W57.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W58.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W59_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W60_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W64.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W66.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W67.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W68.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W69.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W70.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W71_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W72_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W74.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W75.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W77.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W79.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W80.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W82.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W83_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W84_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W85.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W86.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W87.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W88.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W89.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W90.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W91.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W92.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W93.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W94.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W95_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T3W96_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W01.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W02.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W03.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W04.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W06.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W09.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W10.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W11_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W12_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W13.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W16.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W20.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W21.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W22.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W23_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W24_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W25.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W27.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W29.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W30.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W31.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W32.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W33.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W34.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W35_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W36_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W37.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W38.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W39.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W41.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W44.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W46.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W47_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W48_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W49.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W50.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W52.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W53.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W54.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W55.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W56.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W57.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W59_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W60_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W61.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W62.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W63.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W64.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W66.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W71_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W72_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W83_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W84_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W95_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T4W96_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W11_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W12_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W23_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W24_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W35_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W36_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W47_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W48_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W59_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W60_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W71_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W72_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W83_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W84_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W95_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T5W96_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W11_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W12_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W23_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W24_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W35_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W36_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W47_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W48_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W59_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W60_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W71_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W72_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W83_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W84_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W95_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T6W96_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W11_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W12_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W23_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W24_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W35_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W36_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W47_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W48_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W59_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W60_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W71_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W72_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W83_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W84_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W95_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T7W96_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W11_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W12_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W23_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W24_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W35_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W36_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W47_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W48_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W59_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W60_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W71_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W72_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W83_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W84_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W95_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T8W96_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T9W11_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T9W12_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T9W23_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T9W24_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T9W35_MR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T9W36_SR.mzML
FILES
Swabs_RNEG_mzML
MacIntyre_RNEG_CPCTOF02_T9W47_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1E1_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD01.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD02.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD03.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD04.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD05.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD06.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD07.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD08.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD09.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD10.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD11.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD12.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD13.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD14.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD15.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD16.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD17.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD18.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD19.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD20.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD21.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD22.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD23.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD24.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD25.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD26.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD27.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD28.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD29.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD30.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD31.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD32.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD33.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD34.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD35.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD36.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD37.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD38.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD39.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD40.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD41.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD42.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD43.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD44.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD45.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD46.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD47.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD48.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD49.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD50.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD51.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD52.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD53.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD54.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD55.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD56.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD57.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD58.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD59.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD60.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD61.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD62.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD63.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD64.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD65.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD66.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD67.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD68.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD69.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD70.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD71.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD72.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD73.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD74.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD75.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD76.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD77.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD78.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD79.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD80.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD81.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD82.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD83.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD84.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD85.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD86.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD87.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD88.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD89.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD90.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD91.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_B1SRD92.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W01.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W02.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W05.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W08.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W09.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W11_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W12_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W14.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W15.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W18.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W20.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W21.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W22.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W23_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W24_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W26.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W27.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W28.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W30.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W32.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W33.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W34.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W35_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W36_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W38.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W41.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W42.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W43.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W44.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W45.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W46.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W47_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W48_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W49.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W50.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W51.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W52.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W53.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W56.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W57.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W59_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W60_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W61.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W63.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W65.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W67.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W69.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W71_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W72_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W73.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W76.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W78.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W79.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W80.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W81.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W82.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W83_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W84_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W85.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W86.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W87.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W88.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W89.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W91.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W92.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W94.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W95_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T1W96_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W01.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W03.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W05.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W09.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W10.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W11_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W12_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W13.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W14.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W16.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W17.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W18.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W19.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W20.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W21.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W22.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W23_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W24_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W26.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W27.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W29.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W32.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W33.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W35_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W36_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W37.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W38.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W41.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W42.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W44.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W45.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W47_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W48_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W51.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W52.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W53.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W57.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W59_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W60_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W61.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W62.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W64.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W65.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W66.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W69.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W70.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W71_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W72_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W74.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W75.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W77.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W78.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W79.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W81.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W82.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W83_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W84_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W85.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W86.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W87.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W88.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W91.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W95_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T2W96_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W01.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W04.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W05.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W06.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W07.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W08.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W09.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W11_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W12_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W13.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W14.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W15.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W16.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W17.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W18.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W19.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W20.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W21.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W22.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W23_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W24_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W26.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W30.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W31.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W32.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W33.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W34.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W35_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W36_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W37.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W38.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W39.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W42.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W43.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W44.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W46.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W47_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W48_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W49.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W50.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W51.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W52.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W53.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W55.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W56.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W57.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W58.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W59_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W60_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W64.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W66.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W67.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W68.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W69.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W70.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W71_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W72_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W74.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W75.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W77.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W79.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W80.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W82.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W83_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W84_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W85.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W86.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W87.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W88.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W89.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W90.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W91.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W92.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W93.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W94.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W95_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T3W96_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W01.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W02.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W03.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W04.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W06.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W09.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W10.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W11_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W12_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W13.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W16.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W20.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W21.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W22.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W23_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W24_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W25.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W27.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W29.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W30.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W31.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W32.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W33.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W34.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W35_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W36_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W37.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W38.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W39.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W41.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W44.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W46.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W47_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W48_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W49.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W50.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W52.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W53.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W54.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W55.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W56.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W57.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W59_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W60_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W61.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W62.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W63.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W66.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W71_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W72_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W83_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W84_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W95_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T4W96_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W11_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W12_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W23_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W24_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W35_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W36_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W47_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W48_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W59_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W60_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W71_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W72_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W83_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W84_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W95_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T5W96_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W11_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W12_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W23_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W24_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W35_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W36_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W47_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W48_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W59_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W60_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W71_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W72_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W83_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W84_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W95_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T6W96_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W11_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W12_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W23_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W24_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W35_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W36_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W47_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W48_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W59_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W60_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W71_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W72_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W83_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W84_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W95_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T7W96_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W11_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W12_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W23_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W24_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W35_MR.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 74%|███████▎  | 1232/1674 [2:54:47<4:26:35, 36.19s/it]
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W36_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W47_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W48_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W59_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W60_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W71_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W72_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W83_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W84_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W95_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T8W96_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T9W11_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T9W12_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T9W23_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T9W24_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T9W35_MR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T9W36_SR.mzML
FILES
Swabs_RPOS_mzML
MacIntyre_RPOS_CPCTOF01_T9W47_MR.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Ethnicity
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Cerclage Material
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Cerclage Presence
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Unit.5
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Outcome
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_BioSamples accession
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_PTB categorized
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Accession Number.16
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Term Accession Number.13
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Body Mass Index
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_Gestational Age
IGNORED:  Samples_age
IGNORED:  Samples_Timepoint
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Subject Identifier
IGNORED:  Samples_Term Source REF.13
IGNORED:  Samples_Term Accession Number.14
IGNORED:  Samples_Unit.3
IGNORED:  Samples_Gestation delivery
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Unit.4
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Source REF.14
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Cerclage Insertion
IGNORED:  Assay_DI Instrument
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Term Accession Number.15
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Source REF.16
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Term Source REF.15
Number of rows removed due to not enough metadata: 340
Returning 3854 rows!
Added 3854 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS718
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-S QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
HPOS
GramCov_HPOS_ToF08_B1SRD01.mzML
FILES
DERIVED_FILES
HPOS
GramCov_HPOS_ToF08_B1SRD02.mzML
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
HPOS
GramCov_HPOS_ToF08_B1SRD10.mzML
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DERIVED_FILES
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GramCov_HPOS_ToF08_B1SRD11.mzML
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DERIVED_FILES
HPOS
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DERIVED_FILES
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DERIVED_FILES
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GramCov_HPOS_ToF08_B1SRD14.mzML
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DERIVED_FILES
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DERIVED_FILES
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GramCov_HPOS_ToF08_B1SRD19.mzML
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 1259 rows!
Added 1259 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS814
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX API 4000: missing value
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IGNORED:  Assay_Post Extraction/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS816
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS723
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7237
Request successful!
SampleCollectionMethod: ADDED!
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HumanPopulationDensity: ADDED!
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qiita_sample_name: ADDED!
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  AB SCIEX X500R QTOF: missing value
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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 10216
Returning 2719 rows!
Added 2719 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7251
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Samples_Term Source REF.5/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 74%|███████▍  | 1238/1674 [2:59:29<6:59:49, 57.77s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 74%|███████▍  | 1239/1674 [2:59:34<5:04:02, 41.94s/it]
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7252
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Agilent 6230 Accurate-Mass TOF: missing value
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KEIO-2021-0080_Anion_01_d2.mzML
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KEIO-2021-0080_Anion_03_d2.mzML
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KEIO-2021-0121_Cation_14_d2.mzML
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Cation
KEIO-2021-0121_Cation_15_d2.mzML
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Cation
KEIO-2021-0121_Cation_16_d2.mzML
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KEIO-2021-0121_Cation_17_d2.mzML
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Cation
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 52 rows!
Added 52 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7253
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Agilent 6230 Accurate-Mass TOF: missing value
ENVOEnvironmentBiome:
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FILES
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Anion
KEIO-2021-0080_Anion_01_d2.mzML
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Anion
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KEIO-2021-0080_Anion_13_d2.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 74%|███████▍  | 1240/1674 [2:59:41<3:48:27, 31.58s/it]
FILES
DERIVED_FILES
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KEIO-2021-0080_Anion_14_d2.mzML
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KEIO-2021-0080_Anion_15_d2.mzML
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KEIO-2021-0080_Anion_26_d2.mzML
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KEIO-2021-0080_Anion_27_d2.mzML
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KEIO-2021-0080_Cation_01_d2.mzML
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS946
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Is Descendant
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 74%|███████▍  | 1241/1674 [2:59:47<2:52:47, 23.94s/it]
 74%|███████▍  | 1242/1674 [2:59:49<2:04:24, 17.28s/it]IGNORED:  Samples_Term Accession Number.1
IGNORED:  row_id
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  Samples_Collection Time Point
Number of rows removed due to not enough metadata: 4
Returning 51 rows!
Added 51 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS727
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS73
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific LTQ XL linear ion trap: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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20090609_18_AAStd.RAW/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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20090612_20_R017_CNR_52.RAW
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20090612_21_R047_NOR_52.RAW
FILES
20090612_22_R002_AC++_54.RAW
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20090612_23_R060_RIN_54.RAW
FILES
20090612_24_R042_NOR_54.RAW
FILES
20090612_25_R018_CNR_54.RAW
FILES
20090612_26_R132_RIN_51.RAW
FILES
20090612_27_R109_AC++_51.RAW
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20090612_28_R120_NOR_51.RAW
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20090612_29_R156_CNR_51.RAW
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20090612_30_R153_CNR_53.RAW
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20090612_31_R121_NOR_53.RAW
FILES
20090612_32_QC.RAW
FILES
20090612_33_AAStd.RAW
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20090612_34_R110_AC++_53.RAW
FILES
20090612_35_R133_RIN_53.RAW
FILES
20090612_36_R064_RIN_50.RAW
FILES
20090612_37_R008_AC++_50.RAW
FILES
20090612_38_R045_NOR_50.RAW
FILES
20090612_39_R023_CNR_50.RAW
FILES
20090612_40_R046_NOR_40.RAW
FILES
20090612_41_R062_RIN_40.RAW
FILES
20090612_42_R092_AC++_40.RAW
FILES
20090612_43_R020_CNR_40.RAW
FILES
20090612_44_R099_AC++_20.RAW
FILES
20090612_45_R145_NOR_20.RAW
FILES
20090612_46_R143_RIN_20.RAW
FILES
20090612_47_QC.RAW
FILES
20090612_48_AAStd.RAW
FILES
20090612_49_R150_CNR_20.RAW
FILES
20090612_50_R061_RIN_47.RAW
FILES
20090612_51_R093_AC++_47.RAW
FILES
20090612_52_R048_NOR_47.RAW
FILES
20090612_53_R019_CNR_47.RAW
FILES
20090612_54_R022_CNR_48.RAW
FILES
20090612_55_R007_AC++_48.RAW
FILES
20090612_56_R044_NOR_48.RAW
FILES
20090612_57_R063_RIN_48.RAW
FILES
20090612_58_R125_NOR_49.RAW
FILES
20090612_59_R103_CNR_49.RAW
FILES
20090612_60_R108_AC++_49.RAW
FILES
20090612_61_R137_RIN_49.RAW
FILES
20090612_62_QC.RAW
FILES
20090612_63_AAstd.RAW
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  base
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IGNORED:  extension
IGNORED:  Samples_Cultivars
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Sample Time
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Batch
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 25
Returning 354 rows!
Added 354 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7328
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 74%|███████▍  | 1244/1674 [3:00:20<1:51:05, 15.50s/it]
 74%|███████▍  | 1245/1674 [3:00:24<1:26:52, 12.15s/it]
 74%|███████▍  | 1246/1674 [3:00:27<1:05:58,  9.25s/it]
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NEG
NEG_QC1.mzXML
FILES
DERIVED_FILES
NEG
NEG_QC2.mzXML
FILES
DERIVED_FILES
NEG
NEG_QC3.mzXML
FILES
DERIVED_FILES
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NEG_QC4.mzXML
FILES
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NEG_QC5.mzXML
FILES
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NEG
S288c_high sugar_1.mzXML
FILES
DERIVED_FILES
NEG
S288c_high sugar_2.mzXML
FILES
DERIVED_FILES
NEG
S288c_high sugar_3.mzXML
FILES
DERIVED_FILES
NEG
S288c_high sugar_4.mzXML
FILES
DERIVED_FILES
NEG
S288c_high sugar_5.mzXML
FILES
DERIVED_FILES
NEG
S288c_high sugar_6.mzXML
FILES
DERIVED_FILES
NEG
S288c_low sugar_1.mzXML
FILES
DERIVED_FILES
NEG
S288c_low sugar_2.mzXML
FILES
DERIVED_FILES
NEG
S288c_low sugar_3.mzXML
FILES
DERIVED_FILES
NEG
S288c_low sugar_4.mzXML
FILES
DERIVED_FILES
NEG
S288c_low sugar_5.mzXML
FILES
DERIVED_FILES
NEG
S288c_low sugar_6.mzXML
FILES
DERIVED_FILES
NEG
XP_high sugar_1.mzXML
FILES
DERIVED_FILES
NEG
XP_high sugar_2.mzXML
FILES
DERIVED_FILES
NEG
XP_high sugar_3.mzXML
FILES
DERIVED_FILES
NEG
XP_high sugar_4.mzXML
FILES
DERIVED_FILES
NEG
XP_high sugar_5.mzXML
FILES
DERIVED_FILES
NEG
XP_high sugar_6.mzXML
FILES
DERIVED_FILES
NEG
XP_low sugar_1.mzXML
FILES
DERIVED_FILES
NEG
XP_low sugar_2.mzXML
FILES
DERIVED_FILES
NEG
XP_low sugar_3.mzXML
FILES
DERIVED_FILES
NEG
XP_low sugar_4.mzXML
FILES
DERIVED_FILES
NEG
XP_low sugar_5.mzXML
FILES
DERIVED_FILES
NEG
XP_low sugar_6.mzXML
FILES
DERIVED_FILES
POS
POS_QC1.mzXML
FILES
DERIVED_FILES
POS
POS_QC2.mzXML
FILES
DERIVED_FILES
POS
POS_QC3.mzXML
FILES
DERIVED_FILES
POS
POS_QC4.mzXML
FILES
DERIVED_FILES
POS
POS_QC5.mzXML
FILES
DERIVED_FILES
POS
S288c_high sugar_1.mzXML
FILES
DERIVED_FILES
POS
S288c_high sugar_2.mzXML
FILES
DERIVED_FILES
POS
S288c_high sugar_3.mzXML
FILES
DERIVED_FILES
POS
S288c_high sugar_4.mzXML
FILES
DERIVED_FILES
POS
S288c_high sugar_5.mzXML
FILES
DERIVED_FILES
POS
S288c_high sugar_6.mzXML
FILES
DERIVED_FILES
POS
S288c_low sugar_1.mzXML
FILES
DERIVED_FILES
POS
S288c_low sugar_2.mzXML
FILES
DERIVED_FILES
POS
S288c_low sugar_3.mzXML
FILES
DERIVED_FILES
POS
S288c_low sugar_4.mzXML
FILES
DERIVED_FILES
POS
S288c_low sugar_5.mzXML
FILES
DERIVED_FILES
POS
S288c_low sugar_6.mzXML
FILES
DERIVED_FILES
POS
XP_high sugar_1.mzXML
FILES
DERIVED_FILES
POS
XP_high sugar_2.mzXML
FILES
DERIVED_FILES
POS
XP_high sugar_3.mzXML
FILES
DERIVED_FILES
POS
XP_high sugar_4.mzXML
FILES
DERIVED_FILES
POS
XP_high sugar_5.mzXML
FILES
DERIVED_FILES
POS
XP_high sugar_6.mzXML
FILES
DERIVED_FILES
POS
XP_low sugar_1.mzXML
FILES
DERIVED_FILES
POS
XP_low sugar_2.mzXML
FILES
DERIVED_FILES
POS
XP_low sugar_3.mzXML
FILES
DERIVED_FILES
POS
XP_low sugar_4.mzXML
FILES
DERIVED_FILES
POS
XP_low sugar_5.mzXML
FILES
DERIVED_FILES
POS
XP_low sugar_6.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
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IGNORED:  keep
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Is Descendant
IGNORED:  Assay_Scan m/z range
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Sugar
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 58 rows!
Added 58 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS737
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7370
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS739
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977A MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
GV_24092015_218_rep1.mzML
FILES
GV_24092015_219_rep1.mzML
FILES
GV_24092015_233_rep1.mzML
FILES
GV_25092015_204_rep1.mzML
FILES
GV_25092015_225_rep1.mzML
FILES
GV_26092015_217_rep1.mzML
FILES
GV_26092015_220_rep1.mzML
FILES
GV_26092015_222_rep1.mzML
FILES
GV_29092015_226_rep1.mzML
FILES
GV_29092015_227_rep1.mzML
FILES
GV_29092015_236_rep1.mzML
FILES
GV_30092015_205_rep1.mzML
FILES
GV_30092015_221_rep1.mzML
FILES
GV_30092015_228_rep1.mzML
FILES
GV_30092015_229_rep1.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 74%|███████▍  | 1247/1674 [3:00:33<58:54,  8.28s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▍  | 1248/1674 [3:00:41<59:36,  8.40s/it]
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Shear stress
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7394
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Waters SYNAPT G2 HDMS System: missing value
IonizationSourceAndPolarity:
  electrospray ionization: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
BlK_1_C18MSe_1.raw
FILES
BlK_1_HILICMSe.raw
FILES
BlK_2_C18MSe_1.raw
FILES
BlK_2_HILICMSe.raw
FILES
BlK_3_C18MSe_1.raw
FILES
BlK_3_HILICMSe.raw
FILES
BlK_4_C18MSe_1.raw
FILES
BlK_4_HILICMSe.raw
FILES
BlK_5_C18MSe_1.raw
FILES
BlK_5_HILICMSe.raw
FILES
BlK_6_C18MSe_1.raw
FILES
BlK_6_HILICMSe.raw
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Blk_ext_1_C18MSe_1.raw
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Blk_ext_1_HILICMSe.raw
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Blk_ext_2_C18MSe_1.raw
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Blk_ext_2_HILICMSe.raw
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Blk_ext_3_C18MSe_1.raw
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Blk_ext_3_HILICMSe.raw
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QC_10_C18MSe_1.raw
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QC_10_HILICMSe.raw
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QC_11_C18MSe_1.raw
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QC_11_HILICMSe.raw
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QC_12_C18MSe_1.raw
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QC_12_HILICMSe.raw
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QC_13_C18MSe_1.raw
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QC_13_HILICMSe.raw
FILES
QC_14_C18MSe_1.raw
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QC_14_HILICMSe.raw
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QC_15_C18MSe_1.raw
FILES
QC_15_HILICMSe.raw
FILES
QC_16_HILICMSe.raw
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QC_17_HILICMSe.raw
FILES
QC_18_HILICMSe.raw
FILES
QC_19_HILICMSe.raw
FILES
QC_1_C18MSe_1.raw
FILES
QC_1_HILICMSe.raw
FILES
QC_2_C18MSe_1.raw
FILES
QC_2_HILICMSe.raw
FILES
QC_3_C18MSe_1.raw
FILES
QC_3_HILICMSe.raw
FILES
QC_4_C18MSe_1.raw
FILES
QC_4_HILICMSe.raw
FILES
QC_5_C18MSe_1.raw
FILES
QC_5_HILICMSe.raw
FILES
QC_6_C18MSe_1.raw
FILES
QC_6_HILICMSe.raw
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QC_7_C18MSe_1.raw
FILES
QC_7_HILICMSe.raw
FILES
QC_8_C18MSe_1.raw
FILES
QC_8_HILICMSe.raw
FILES
QC_9_C18MSe_1.raw
FILES
QC_9_HILICMSe.raw
FILES
QC_Col_1_C18MSe_1.raw
FILES
QC_Col_1_HILICMSe.raw
FILES
QC_Col_2_C18MSe_1.raw
FILES
QC_Col_2_HILICMSe.raw
FILES
QC_Col_3_C18MSe_1.raw
FILES
QC_Col_3_HILICMSe.raw
FILES
S_10_C18MSe_1.raw
FILES
S_10_HILICMSe.raw
FILES
S_11_C18MSe_1.raw
FILES
S_11_HILICMSe.raw
FILES
S_12_C18MSe_1.raw
FILES
S_12_HILICMSe.raw
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Number of rows removed due to not enough metadata: 0
Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS744
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
IonizationSourceAndPolarity:
   (positive): missing value
FILES
MPIMM_039_QE_P_BP_CF_Bputeoserpentis_MALDI-FISH8_Sl14_s1_DHB_233x233_3um.mzML
FILES
MPIMM_054_QE_P_BP_CF_Bputeoserpentis_MALDI-FISH8_Sl16_s1_DHB_233x233_3um.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 75%|███████▍  | 1249/1674 [3:00:50<58:57,  8.32s/it]
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IGNORED:  Assay_Metabolite database
IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Term Source REF.2
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IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
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Number of rows removed due to not enough metadata: 0
Returning 2 rows!
Added 2 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9535
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Signaling condition
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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IGNORED:  keep
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IGNORED:  extension/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▍  | 1250/1674 [3:00:57<57:09,  8.09s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▍  | 1251/1674 [3:01:04<53:57,  7.65s/it]
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Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS748
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS75
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES
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IGNORED:  filename_lower/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▍  | 1252/1674 [3:01:11<53:34,  7.62s/it]
 75%|███████▍  | 1253/1674 [3:01:13<41:14,  5.88s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▍  | 1254/1674 [3:01:22<46:36,  6.66s/it]
IGNORED:  Assay_Column type
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 48
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7508
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7519
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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PT-6.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 28 rows!
Added 28 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS753
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
GFCand1_a.raw
FILES
GFCand1_b.raw
FILES
GFCand2_a.raw
FILES
GFCand2_b.raw
FILES
GFCand3_a.raw
FILES
GFCand3_b.raw
FILES
GFCand4_a.raw
FILES
GFCand4_b.raw
FILES
GFCand5_a.raw
FILES
GFCand5_b.raw
FILES
GFCand6_a.raw
FILES
GFCand6_b.raw
FILES
GFSal1_a.raw
FILES
GFSal1_b.raw
FILES
GFSal2_a.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  extension
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IGNORED:  Samples_Sample Name
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▍  | 1255/1674 [3:01:30<49:27,  7.08s/it]
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 62 rows!
Added 62 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS821
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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  AB SCIEX QTRAP 5555: missing value
  AB SCIEX QTRAP 5556: missing value
  AB SCIEX QTRAP 5557: missing value
  AB SCIEX QTRAP 5558: missing value
  AB SCIEX QTRAP 5559: missing value
  AB SCIEX QTRAP 5560: missing value
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ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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KIT3-0-5504_1020804084_81_0_1_1_00_1020803546.wiff/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Post Extraction
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IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
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IGNORED:  Assay_Well Position
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 48
Returning 231 rows!
Added 231 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS824
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 16
Returning 159 rows!
Added 159 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS769
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
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IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Spatial resolution
IGNORED:  Assay_Term Accession Number.17
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IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▌  | 1258/1674 [3:02:04<1:04:11,  9.26s/it]
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 3 rows!
Added 3 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS771
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
  Waters Xevo G2-S Tof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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FILES
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FILES
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FILES
POS_ToF_GreenTea_S09n03.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Spiking level
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Injection order
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Geographical origin
IGNORED:  Samples_Spiking mix
IGNORED:  Assay_Scan m/z range
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▌  | 1259/1674 [3:02:11<1:00:01,  8.68s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▌  | 1260/1674 [3:02:17<54:06,  7.84s/it]  
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 24
Returning 115 rows!
Added 115 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7736
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
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10.raw
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QC1-4.raw
FILES
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QC1-5.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_age
IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_GSD cohort
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7753
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 120: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 124 rows!
Added 124 samples.
Error requesting data: ('Connection broken: IncompleteRead(255648 bytes read, 72799 more expected)', IncompleteRead(255648 bytes read, 72799 more expected))
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7760
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Agilent 5977B MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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HepG2_Time series experiment/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment_1
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Experiment
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_Timepoint_2
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_Timepoint_1
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Treatment_2
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 229 rows!
Added 229 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7789
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 480: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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POS-4.raw
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POS-5.raw
FILES
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POS-6.raw
FILES
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FILES
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Phe-3.raw
FILES
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Phe-4.raw
FILES
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Phe-5.raw
FILES
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FILES
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QC-1.raw
FILES
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FILES
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QC-2.raw
FILES
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QC-3.raw
FILES
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QC-4.raw
FILES
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QC-5.raw
FILES
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FILES
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FILES
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FILES
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FILES
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Val-6.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Amino acid supplementation
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 75%|███████▌  | 1263/1674 [3:07:15<7:27:51, 65.38s/it] /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 76%|███████▌  | 1264/1674 [3:07:21<5:24:20, 47.47s/it]
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 82 rows!
Added 82 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9657
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 4600: missing value
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  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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FILES
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7872
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  : missing value
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8-MeOH-MS-B-C-LPS-pos.mzML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 76%|███████▌  | 1265/1674 [3:07:28<4:01:16, 35.40s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 76%|███████▌  | 1266/1674 [3:07:33<2:58:58, 26.32s/it]
 76%|███████▌  | 1267/1674 [3:07:39<2:17:45, 20.31s/it]
IGNORED:  Samples_LPS Incubation Time
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Disease
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 68 rows!
Added 68 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7878
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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neg_C1.raw
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Is Fluid
IGNORED:  keep
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IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 66 rows!
Added 66 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS79
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS790
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 152 rows!
Added 152 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7936
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 88 rows!
Added 88 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS795
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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MassSpectrometer:
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QXA11NEG20151009_GILL0115VW_MOUSE_HEART_05.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 128 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS968
Request successful!
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 76%|███████▌  | 1271/1674 [3:08:12<1:12:41, 10.82s/it]DOIDCommonName: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 108 rows!
Added 108 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8024
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Vion IMS QTof: missing value
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ENVOEnvironmentMaterial:
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FILES
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FILES
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QC1-3.raw
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QC1-4.raw
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Treatment_6.raw
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 76%|███████▌  | 1272/1674 [3:08:16<59:22,  8.86s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 76%|███████▌  | 1273/1674 [3:08:21<50:38,  7.58s/it]
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS808
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ XL linear ion trap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
spot 1.RAW
FILES
spot 10.RAW
FILES
spot 11.RAW
FILES
spot 12.RAW
FILES
spot 13.RAW
FILES
spot 14.RAW
FILES
spot 15.RAW
FILES
spot 16.RAW
FILES
spot 17.RAW
FILES
spot 18.RAW
FILES
spot 19.RAW
FILES
spot 2.RAW
FILES
spot 3.RAW
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spot 7.RAW
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 19 rows!
Added 19 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS840
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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C9P3neg.mzXML
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Solar radiation
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Protocol REF
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Humidity
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Rainfall
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Developmental stage
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Source REF.2
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Samples_Temperature
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 76%|███████▌  | 1274/1674 [3:08:28<50:32,  7.58s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 76%|███████▌  | 1275/1674 [3:08:34<46:22,  6.97s/it]
 76%|███████▌  | 1276/1674 [3:08:36<36:00,  5.43s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 76%|███████▋  | 1277/1674 [3:08:44<41:08,  6.22s/it]
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 68 rows!
Added 68 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8236
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Elite: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Bnapa_leaf_MjasmTr_1.raw
FILES
Bnapa_leaf_MjasmTr_2.raw
FILES
Bnapa_leaf_MjasmTr_3.raw
FILES
Bnapa_leaf_MjasmTr_3_CID_MSn.raw
FILES
Bnapa_leaf_MjasmTr_3_HCD_MS2.raw
FILES
Bnapa_leaf_PlutellaTr_1.raw
FILES
Bnapa_leaf_PlutellaTr_2.raw
FILES
Bnapa_leaf_PlutellaTr_2_HCD_MS2.raw
FILES
Bnapa_leaf_PlutellaTr_3.raw
FILES
Bnapa_leaf_UV_B_Tr_1.raw
FILES
Bnapa_leaf_UV_B_Tr_2.raw
FILES
Bnapa_leaf_UV_B_Tr_3.raw
FILES
Bnapa_leaf_control_Mjasm_1.raw
FILES
Bnapa_leaf_control_Mjasm_2.raw
FILES
Bnapa_leaf_control_Mjasm_3.raw
FILES
Bnapa_leaf_whitelight_1.raw
FILES
Bnapa_leaf_whitelight_2.raw
FILES
Bnapa_leaf_whitelight_3.raw
FILES
QC_Pooled_1.raw
FILES
QC_Pooled_10.raw
FILES
QC_Pooled_2.raw
FILES
QC_Pooled_3.raw
FILES
QC_Pooled_4.raw
FILES
QC_Pooled_5.raw
FILES
QC_Pooled_6.raw
FILES
QC_Pooled_7.raw
FILES
QC_Pooled_8.raw
FILES
QC_Pooled_9.raw
FILES
QC_Pooled_fragm_CID_MSn.raw
FILES
QC_Pooled_fragm_HCD_MS2.raw
FILES
Test_Leaf_UVB_2.raw
FILES
Test_Leaf_UVB_2_CID_MSn.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8439
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8278
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
061422QQM1.wiff
FILES
RAW_FILES
061422QQM10.wiff
FILES
RAW_FILES
061422QQM11.wiff
FILES
RAW_FILES
061422QQM12.wiff
FILES
RAW_FILES
061422QQM2.wiff
FILES
RAW_FILES
061422QQM3.wiff
FILES
RAW_FILES
061422QQM4.wiff
FILES
RAW_FILES
061422QQM5.wiff
FILES
RAW_FILES
061422QQM6.wiff
FILES
RAW_FILES
061422QQM7.wiff
FILES
RAW_FILES
061422QQM8.wiff
FILES
RAW_FILES
061422QQM9.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS844
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977A MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
FILES
MS16_20170713_039_0714.mzXML
FILES
MS16_20170713_039_0714.mzXML
FILES
MS16_20170713_040.mzXML
FILES
MS16_20170713_040.mzXML
FILES
MS16_20170713_042.mzXML
FILES
MS16_20170713_042.mzXML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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MS16_20170713_044.mzXML
FILES
MS16_20170713_044.mzXML
FILES
MS16_20170713_045_0714.mzXML
FILES
MS16_20170713_045_0714.mzXML
FILES
MS16_20170713_046.mzXML
FILES
MS16_20170713_046.mzXML
FILES
MS16_20170713_055.mzXML
FILES
MS16_20170713_055.mzXML
FILES
MS16_20170713_057.mzXML
FILES
MS16_20170713_057.mzXML
FILES
MS16_20170713_064.mzXML
FILES
MS16_20170713_064.mzXML
FILES
MS16_20170713_067.mzXML
FILES
MS16_20170713_067.mzXML
FILES
MS16_20170717_038.mzXML
FILES
MS16_20170717_038.mzXML
FILES
MS16_20170717_039.mzXML
FILES
MS16_20170717_039.mzXML
FILES
MS16_20170717_045.mzXML
FILES
MS16_20170717_045.mzXML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Habitat
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Sediment Depth
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS846
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS847
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS834
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Term Source REF.16
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IGNORED:  Assay_Term Accession Number.15
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IGNORED:  Assay_Term Source REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1281/1674 [3:09:07<45:03,  6.88s/it]
 77%|███████▋  | 1282/1674 [3:09:09<37:06,  5.68s/it]
 77%|███████▋  | 1283/1674 [3:09:23<52:35,  8.07s/it]
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
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IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 248 rows!
Added 248 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8370
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS974
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8433
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
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IGNORED:  Samples_Variant/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1284/1674 [3:09:42<1:13:04, 11.24s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1285/1674 [3:09:46<1:00:16,  9.30s/it]
IGNORED:  Assay_Protocol REF
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Returning 779 rows!
Added 779 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8434
Request successful!
SampleCollectionMethod: ADDED!
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qiita_sample_name: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 44 rows!
Added 44 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9769
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1286/1674 [3:09:51<51:32,  7.97s/it]  
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
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IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Term Accession Number
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9772
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
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MassSpectrometer:
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210715_Sample_137.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1287/1674 [3:10:06<1:05:10, 10.10s/it]
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IGNORED:  Samples_inducer
IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_genotype
IGNORED:  Samples_cultivation_time
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_inhibitor
IGNORED:  Samples_labeling_time
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 198 rows!
Added 198 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8492
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
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MassSpectrometer:
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UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
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IGNORED:  Assay_Term Accession Number
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IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Origin
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Post Extraction
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IGNORED:  Samples_Sampling points
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
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IGNORED:  filename_lower
IGNORED:  Assay_Column type/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1288/1674 [3:10:20<1:12:06, 11.21s/it]
 77%|███████▋  | 1289/1674 [3:10:22<53:55,  8.40s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1290/1674 [3:10:27<47:46,  7.46s/it]
IGNORED:  Samples_Term Accession Number.8
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Number of rows removed due to not enough metadata: 16
Returning 265 rows!
Added 265 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS855
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS856
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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Number of rows removed due to not enough metadata: 0
Returning 40 rows!
Added 40 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8575
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
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ENVOEnvironmentMaterial:
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169.mzML
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202.mzML
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203.mzML
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213.mzML
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214.mzML
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216.mzML
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219.mzML
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DERIVED_FILES
220.mzML
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QC_Pool_ID_incl_01.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 378 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8577
Request successful!
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Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS858
Request successful!
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FILES
DN_D_3.mzxml
FILES
DN_D_3_n.mzxml
FILES
DN_D_4.mzxml
FILES
DN_D_4_n.mzxml
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DN_E_1.mzxml
FILES
DN_E_1_n.mzxml
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DN_E_2.mzxml
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DN_E_2_n.mzxml
FILES
DN_E_3.mzxml
FILES
DN_E_3_n.mzxml
FILES
DN_E_4.mzxml
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DN_E_4_n.mzxml
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DN_F_1.mzxml
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DN_F_1_n.mzxml
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DN_F_2.mzxml
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DN_F_2_n.mzxml
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DN_F_3.mzxml
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DN_F_3_n.mzxml
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DN_F_4.mzxml
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DN_F_4_n.mzxml
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FRAG_NEG_n.mzml
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FRAG_POS.mzml
FILES
Matrix_blank1.mzxml
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Matrix_blank1_n.mzxml
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Matrix_blank2.mzxml
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Matrix_blank2_n.mzxml
FILES
Matrix_blank3.mzxml
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Matrix_blank3_n.mzxml
FILES
Matrix_blank4.mzxml
FILES
Matrix_blank4_n.mzxml
FILES
Matrix_blank5.mzxml
FILES
Matrix_blank5_n.mzxml
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Matrix_blank6.mzxml
FILES
Matrix_blank6_n.mzxml
FILES
Pooled_10.mzxml
FILES
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FILES
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FILES
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FILES
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FILES
Pooled_9_n.mzxml
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1293/1674 [3:11:14<1:12:25, 11.41s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1294/1674 [3:11:21<1:04:52, 10.24s/it]
 77%|███████▋  | 1295/1674 [3:11:24<50:30,  8.00s/it]  
 77%|███████▋  | 1296/1674 [3:11:26<38:19,  6.08s/it]
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 74 rows!
Added 74 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS98
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
FILES
Data130918 Phuong.wiff
FILES
Data_130911_Phuong.wiff
FILES
Data_130913_Phuong.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_infection stage
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 3 rows!
Added 3 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS861
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS862
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8628
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
RAW_FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
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IGNORED:  Samples_Term Source REF.5
IGNORED:  Assay_DI Instrument
IGNORED:  extension
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IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Cell line
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 77%|███████▋  | 1297/1674 [3:11:40<54:05,  8.61s/it]
 78%|███████▊  | 1298/1674 [3:11:42<41:42,  6.66s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 78%|███████▊  | 1299/1674 [3:11:50<43:19,  6.93s/it]
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS863
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9830
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 480: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
230707_MM_UKE_FFPE10TMT6.raw
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RAW_FILES
230707_MM_UKE_FFPE1TMT5.raw
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RAW_FILES
230707_MM_UKE_FFPE1TMT7.raw
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230707_MM_UKE_FFPE4TMT1.raw
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RAW_FILES
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230707_MM_UKE_FFPE6TMT3.raw
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230707_MM_UKE_FFPE7TMT3.raw
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230707_MM_UKE_FFPE7TMT6.raw
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230707_MM_UKE_FFPE8TMT2.raw
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230707_MM_UKE_FFPE9TMT5.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
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IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Proteomic subtypes
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS865
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q I: missing value
  micrOTOF-Q: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
neg-15-QC_2-F,7_01_2971.mzML
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neg-15-QC_2-F,7_01_3013.mzML
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neg-15-QC_2-F,7_01_3038.mzML
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neg-15-SN127_1-F,5_01_2796.mzML
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neg_SEG15_Ga.ve._SPIL_1-A,6_01_18276.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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Number of rows removed due to not enough metadata: 94
Returning 447 rows!
Added 447 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9835
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  filename_lower/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 78%|███████▊  | 1301/1674 [3:12:35<1:24:12, 13.55s/it]
 78%|███████▊  | 1302/1674 [3:12:39<1:05:14, 10.52s/it]
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Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9836
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8662
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 366 rows!
Added 366 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS867
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8677
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Agilent 5977B MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Samples_Variety/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 78%|███████▊  | 1305/1674 [3:13:00<47:00,  7.64s/it]
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 9 rows!
Added 9 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8679
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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neg
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pos
22P2248000101_OCTML_POS.raw
FILES
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22P2248000201_OCTML_POS.raw
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pos/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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22P22480027_OCTML_POS.raw
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22P22480028_OCTML_POS.raw
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22P2248002901_OCTML_POS.raw
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22P22480029_OCTML_POS.raw
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22P2248003001_OCTML_POS.raw
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22P22480030_OCTML_POS.raw
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22P2248003101_OCTML_POS.raw
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pos
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FILES
RAW_FILES
pos
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QC_OCTML_POS_06.raw
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QC_OCTML_POS_07.raw
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QC_OCTML_POS_09.raw
FILES
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QC_OCTML_POS_11.raw
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QC_OCTML_POS_12.raw
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QC_OCTML_POS_13.raw
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FILES
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QC_OCTML_POS_15.raw
FILES
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QC_OCTML_POS_16.raw
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QC_OCTML_POS_17.raw
FILES
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pos
QC_OCTML_POS_18.raw
FILES
RAW_FILES
pos
QC_OCTML_POS_19.raw
FILES
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pos
QC_OCTML_POS_20.raw
FILES
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QC_OCTML_POS_MSMS1.raw
FILES
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QC_OCTML_POS_MSMS2.raw
FILES
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QC_OCTML_POS_MSMS3.raw
FILES
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QC_OCTML_POS_MSMS4.raw
FILES
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pos
QC_OCTML_POS_MSMS5.raw
IGNORED:  Samples_Development stage
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Tissue
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 196 rows!
Added 196 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8697
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap XL: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Is Descendant/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 78%|███████▊  | 1307/1674 [3:13:33<1:08:58, 11.28s/it]
IGNORED:  Assay_Chromatography Instrument
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Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9845
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  extension/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 78%|███████▊  | 1308/1674 [3:13:42<1:04:50, 10.63s/it]
 78%|███████▊  | 1309/1674 [3:13:44<47:47,  7.86s/it]  
 78%|███████▊  | 1310/1674 [3:13:45<35:52,  5.91s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 78%|███████▊  | 1311/1674 [3:13:51<35:36,  5.89s/it]
IGNORED:  Samples_Timepoint
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 158 rows!
Added 158 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS871
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS872
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8729
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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10_P.raw
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11_P.raw
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12_P.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Cohort
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Is Fluid
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 98 rows!
Added 98 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8735
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  AB SCIEX TripleTOF 5600+: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
MSMS_2_A_CE20_POS.mzML
FILES
MSMS_2_A_CE30_POS.mzML
FILES
MSMS_2_A_CES_POS.mzML
FILES
MSMS_2_E_CE20_POS.mzML
FILES
MSMS_2_E_CE30_POS.mzML
FILES
MSMS_2_E_CES_POS.mzML
FILES
MSMS_2_STUDY_POOL_CE20_POS.mzML
FILES
MSMS_2_STUDY_POOL_CE30_POS.mzML
FILES
MSMS_2_STUDY_POOL_CES_POS.mzML
FILES
MS_2_A_POS.mzML
FILES
MS_2_E_POS.mzML
FILES
MS_2_STUDY_POOL_POS.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 78%|███████▊  | 1312/1674 [3:13:57<36:18,  6.02s/it]
 78%|███████▊  | 1313/1674 [3:14:01<31:58,  5.32s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 78%|███████▊  | 1314/1674 [3:14:07<32:37,  5.44s/it]
FILES
MS_A_POS.mzML
FILES
MS_B_POS.mzML
FILES
MS_C_POS.mzML
FILES
MS_D_POS.mzML
FILES
MS_E_POS.mzML
FILES
MS_F_POS.mzML
FILES
MS_QC_POOL_1_POS.mzML
FILES
MS_QC_POOL_2_POS.mzML
FILES
MS_QC_POOL_3_POS.mzML
FILES
MS_QC_POOL_4_POS.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 22 rows!
Added 22 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9853
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS88
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
IonizationSourceAndPolarity:
  electrospray ionization: missing value
ENVOEnvironmentBiome:
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FILES
Person4_Blood1_NEG.mzML
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Person4_Blood1_POS.mzML
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Person4_Blood2_NEG.mzML
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Person4_Blood2_POS.mzML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS883
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
NEG_INDPI_16_A4.mzXML
FILES
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NEG_TSS_20_A4.mzXML
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NEG_TSS_20_B3.mzXML
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NEG_TSS_23R_A1.mzXML
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NEG_TSS_23S_B1.mzXML
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NEG_TSS_23_A2.mzXML
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NEG_TSS_23_A3.mzXML
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Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 79%|███████▊  | 1315/1674 [3:14:16<39:01,  6.52s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 79%|███████▊  | 1316/1674 [3:14:21<37:24,  6.27s/it]
 79%|███████▊  | 1317/1674 [3:14:23<28:41,  4.82s/it]
 79%|███████▊  | 1318/1674 [3:14:24<22:54,  3.86s/it]
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Returning 284 rows!
Added 284 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9872
Request successful!
SampleCollectionMethod: ADDED!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS889
Request successful!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS890
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8944
Request successful!
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HF3_CP2_FZTM220104419-2A.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 79%|███████▉  | 1319/1674 [3:14:30<26:02,  4.40s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 90 rows!
Added 90 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9874
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8905
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 4
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS893
Request successful!
SampleCollectionMethod: ADDED!
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IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_Mycorrhization
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Plant growth stage
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 79%|███████▉  | 1322/1674 [3:14:49<33:10,  5.66s/it]
IGNORED:  Samples_Days post inoculation
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS99
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT HDMS System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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nr601_02_pos02.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Sample type_1
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Batch
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Samples_Apple number
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Injection number
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 338 rows!
Added 338 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8950
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
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MassSpectrometer:
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ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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LJCS pos 3.wiff/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Source REF.4
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IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 24
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8954
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS897
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS898
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS90
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2 QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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120810_Pivus_002201.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Analysis date
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 3846 rows!
Added 3846 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9914
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Orbitrap ID-X: missing value
UBERONBodyPartName:
  : missing value
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  nan: missing value
ENVOEnvironmentMaterial:
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FILES
DERIVED_FILES
MetaboMS1posneg
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FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB12_Control.mzML
FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB12_SOX4_OE.mzML
FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB12_SOX4_OE_TET2_KO.mzML
FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB12_Tet2_KO.mzML
FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB13_Control.mzML
FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB13_SOX4_OE.mzML
FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB13_SOX4_OE_TET2_KO.mzML
FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB13_Tet2_KO.mzML
FILES
DERIVED_FILES
MetaboMS1posneg/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 79%|███████▉  | 1329/1674 [3:16:38<1:52:10, 19.51s/it]
Clone_NB3_Control.mzML
FILES
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MetaboMS1posneg
Clone_NB3_SOX4_OE.mzML
FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB3_SOX4_OE_TET2_KO.mzML
FILES
DERIVED_FILES
MetaboMS1posneg
Clone_NB3_Tet2_KO.mzML
FILES
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MetaboMS1posneg
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FILES
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MetaboMS1posneg
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MetaboMSnNeg
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DERIVED_FILES
MetaboMSnPos
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DERIVED_FILES
MetaboMSnPos
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Samples_Cell
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS906
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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20180302_Urine_RPp_107.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 372 rows!
Added 372 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9079
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9929
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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HealthStatus: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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  Thermo Scientific Q Exactive Plus: missing value
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IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Infection
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
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IGNORED:  Samples_Sample type
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IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9930
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
FILES
DERIVED_FILES
IL_neg.mzXML
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FILES
DERIVED_FILES
ML_neg.mzXML
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ML_pos.mzXML
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UIL_neg.mzXML
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UIL_pos.mzXML
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Samples_Source Name
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IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
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IGNORED:  Is Organ
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|███████▉  | 1333/1674 [3:17:06<53:43,  9.45s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|███████▉  | 1334/1674 [3:17:12<46:26,  8.20s/it]
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 6
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9100
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-XS QTof: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Source Name
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9118
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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FILES
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61N.raw
FILES
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68N.raw
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77N.raw
FILES
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83N.raw
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Blk11.raw
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Blk12.raw
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Ethnicity
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|███████▉  | 1335/1674 [3:17:23<50:51,  9.00s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|███████▉  | 1336/1674 [3:17:27<42:15,  7.50s/it]
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_age
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9938
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
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  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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POS
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9155
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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Country: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Protocol REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|███████▉  | 1337/1674 [3:17:31<36:53,  6.57s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|███████▉  | 1338/1674 [3:17:36<33:48,  6.04s/it]
IGNORED:  Samples_Sample type
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IGNORED:  Assay_Guard column
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 5 rows!
Added 5 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS916
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Sample-13.mzML
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 67 rows!
Added 67 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS92
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_N-stage
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|███████▉  | 1339/1674 [3:17:48<44:53,  8.04s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|████████  | 1340/1674 [3:17:52<37:32,  6.75s/it]
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
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Number of rows removed due to not enough metadata: 0
Returning 447 rows!
Added 447 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9948
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS923
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|████████  | 1341/1674 [3:17:59<36:56,  6.66s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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230718_w1-t60_14.raw
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230718_w1-t90_15.raw
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230718_w2-t0_06.raw
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230718_w2-t10_10.raw
FILES
230718_w2-t120_16.raw
FILES
230718_w2-t15_11.raw
FILES
230718_w2-t1_07.raw
FILES
230718_w2-t2_08.raw
FILES
230718_w2-t30_12.raw
FILES
230718_w2-t45_13.raw
FILES
230718_w2-t5_09.raw
FILES
230718_w2-t60_14.raw
FILES
230718_w2-t90_15.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 36
Returning 80 rows!
Added 80 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9234
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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FILES
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POS_Gb14ZCL_ttg1_6.raw
FILES
POS_Gb14ZCL_ttg1c_1.raw
FILES
POS_Gb14ZCL_ttg1c_2.raw
FILES
POS_Gb14ZCL_ttg1c_3.raw
FILES
POS_Gb14ZCL_ttg1c_4.raw
FILES
POS_Gb14ZCL_ttg1c_5.raw
FILES
POS_Gb14ZCL_ttg1c_6.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Cold stress
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9292/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|████████  | 1343/1674 [3:18:09<31:39,  5.74s/it]
 80%|████████  | 1344/1674 [3:18:23<46:08,  8.39s/it]
 80%|████████  | 1345/1674 [3:18:27<38:44,  7.06s/it]
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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NEG_Gg04LF_BSDM1.raw
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NEG_Gg04LF_BSDM2.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS93
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9394
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9409
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
NEG_C1.raw
FILES
RAW_FILES
NEG
NEG_C2.raw
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NEG_C3.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Is Organ
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 80%|████████  | 1346/1674 [3:18:33<36:59,  6.77s/it]
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9424
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
NEG_Fk29QZM_HPLODS_1.raw
FILES
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FILES
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FILES
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POS/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 268 rows!
Added 268 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS943
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 25 rows!
Added 25 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS948
Request successful!
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QXA13POL20181203_CHHB0218ML_HUMAN_PLASMA5_11.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 81%|████████  | 1349/1674 [3:19:08<59:51, 11.05s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 81%|████████  | 1350/1674 [3:19:13<49:15,  9.12s/it]
FILES
QXA13POL20181203_CHHB0218ML_HUMAN_PLASMA5_12.mzML
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QXA13POL20181203_CHHB0218ML_HUMAN_PLASMA5_24.mzML
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
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Number of rows removed due to not enough metadata: 0
Returning 676 rows!
Added 676 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS95
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IonizationSourceAndPolarity:
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ChromatographyAndPhase:
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FILES
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Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS951
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 81%|████████  | 1351/1674 [3:19:22<49:50,  9.26s/it]
 81%|████████  | 1352/1674 [3:19:24<37:19,  6.96s/it]
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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KV-002.mzXML
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Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS952
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS954
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
IonizationSourceAndPolarity:
   (positive): missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Assay_Term Accession Number.24
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Assay_High-res image
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Max dimension y
IGNORED:  Assay_Term Source REF.30
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Sectioning instrument
IGNORED:  Assay_Pixel size x
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Assay_Term Source REF.24
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Term Source REF.37
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Resolving power
IGNORED:  Assay_Unit.5
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Accession Number.41
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.40
IGNORED:  Assay_Scan type
IGNORED:  Assay_Term Source REF.21
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Source REF.26
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Term Accession Number.35
IGNORED:  Assay_Sample Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 81%|████████  | 1353/1674 [3:19:32<39:24,  7.36s/it]
 81%|████████  | 1354/1674 [3:19:34<30:39,  5.75s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 81%|████████  | 1355/1674 [3:19:40<31:02,  5.84s/it]
 81%|████████  | 1356/1674 [3:19:42<24:00,  4.53s/it]
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Term Accession Number.27
IGNORED:  Assay_Term Source REF.27
IGNORED:  Assay_Term Source REF.33
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Term Source REF.42
IGNORED:  Assay_Term Source REF.20
IGNORED:  Assay_Low-res image
IGNORED:  Assay_Matrix application
IGNORED:  keep
IGNORED:  Assay_Line scan direction
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Max count of pixel x
IGNORED:  Assay_Scan pattern
IGNORED:  Assay_Term Accession Number.22
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Term Source REF.41
IGNORED:  Assay_Sample preservation
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Term Accession Number.38
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Term Accession Number.25
IGNORED:  Assay_Instrument software version
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Section thickness
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Term Accession Number.29
IGNORED:  Assay_Term Source REF.32
IGNORED:  Assay_Term Accession Number.32
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Term Accession Number.31
IGNORED:  Assay_Unit
IGNORED:  Samples_Tissue Sample
IGNORED:  Assay_Data file content
IGNORED:  Assay_Term Source REF.25
IGNORED:  Assay_Term Source REF.40
IGNORED:  Assay_Term Source REF.31
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Matrix
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Samples_Variant
IGNORED:  Assay_Term Accession Number.33
IGNORED:  Assay_Term Source REF.36
IGNORED:  Assay_Term Source REF.15
IGNORED:  Assay_Solvent
IGNORED:  Assay_Pixel size y
IGNORED:  Assay_Spectrum representation
IGNORED:  filename_lower
IGNORED:  Assay_Term Source REF.38
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Term Accession Number.37
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Term Source REF.22
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Spatial resolution
IGNORED:  Assay_Term Accession Number.17
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Source REF.34
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Accession Number.36
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Accession Number.26
Number of rows removed due to not enough metadata: 4
Returning 11 rows!
Added 11 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS957
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS959
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
180724_DG180705_01.raw
FILES
180724_DG180705_02.raw
FILES
180724_DG180705_03.raw
FILES
180724_DG180705_04.raw
FILES
180724_DG180705_05.raw
FILES
180724_DG180705_06.raw
FILES
180724_DG180705_07.raw
FILES
180724_DG180705_08.raw
FILES
180724_DG180705_09.raw
FILES
180724_DG180705_10.raw
FILES
180724_DG180705_11.raw
FILES
180724_DG180705_12.raw
FILES
180724_DG180705_13.raw
FILES
180724_DG180705_14.raw
FILES
180724_DG180705_15.raw
FILES
180724_DG180705_16.raw
FILES
180724_DG180705_17.raw
FILES
180724_DG180705_18.raw
FILES
180724_DG180705_19.raw
FILES
180724_DG180705_20.raw
FILES
180724_DG180705_21.raw
FILES
180724_DG180705_22.raw
FILES
180724_DG180705_23.raw
FILES
180724_DG180705_24.raw
FILES
180724_DG180705_Lipidomix_10ugmL.raw
FILES
180724_DG180705_Lipidomix_10ugmL_180726095705.raw
FILES
180724_DG180705_PBQC_1.raw
FILES
180724_DG180705_PBQC_10.raw
FILES
180724_DG180705_PBQC_11.raw
FILES
180724_DG180705_PBQC_2.raw
FILES
180724_DG180705_PBQC_3.raw
FILES
180724_DG180705_PBQC_4.raw
FILES
180724_DG180705_PBQC_5.raw
FILES
180724_DG180705_PBQC_6.raw
FILES
180724_DG180705_PBQC_7.raw
FILES
180724_DG180705_PBQC_8.raw
FILES
180724_DG180705_PBQC_9.raw
FILES
180724_DG180705_blank9.raw
FILES
180830_DG180705_PBQC_MS2neg_1.raw
FILES
180830_DG180705_PBQC_MS2neg_3.raw
FILES
180830_DG180705_PBQC_MS2neg_4.raw
FILES
180830_DG180705_PBQC_MS2pos_1.raw
FILES
180830_DG180705_PBQC_MS2pos_2.raw
FILES
180830_DG180705_PBQC_MS2pos_3.raw
FILES
180830_DG180705_PBQC_MS2pos_4.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Samples_Time
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Disease condition
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 3
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS962
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS963
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 81%|████████  | 1357/1674 [3:19:45<22:29,  4.26s/it]LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Bruker maXis UHR-ToF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
CelegansFraction2_AutoMSn_001.mzML
FILES
DERIVED_FILES
CelegansFraction2_AutoMSn_002.mzML
FILES
DERIVED_FILES
CelegansFraction4_AutoMSn_001.mzML
FILES
DERIVED_FILES
CelegansFraction4_AutoMSn_002.mzML
FILES
DERIVED_FILES
CelegansFraction4_AutoMSn_003.mzML
FILES
DERIVED_FILES
CelegansFraction6_AutoMSn_001.mzML
FILES
DERIVED_FILES
CelegansLipidExtract_AutoMSn.mzML
FILES
DERIVED_FILES
CelegansLipidExtract_bbCID.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Is Descendant
IGNORED:  Samples_Fraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 8 rows!
Added 8 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS982
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Quantum: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 81%|████████  | 1358/1674 [3:19:52<25:20,  4.81s/it]
 81%|████████  | 1359/1674 [3:19:53<20:31,  3.91s/it]IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 105 rows!
Added 105 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS981
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9881
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IonizationSourceAndPolarity:
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UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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GFP_Lip_neg_06h_3.mzML
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Lipidomics_Neg
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Lipidomics_Neg
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Lipidomics_Pos
Blank_Lip_pos_1.mzML
FILES
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Lipidomics_Pos
Blank_Lip_pos_2.mzML
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Lipidomics_Pos
Blank_Lip_pos_3.mzML
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Lipidomics_Pos
GFP_Lip_pos_06h_1.mzML
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Lipidomics_Pos
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Lipidomics_Pos
GFP_Lip_pos_06h_3.mzML
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Lipidomics_Pos
GFP_Lip_pos_24h_2.mzML
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Lipidomics_Pos
GFP_Lip_pos_24h_3.mzML
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Lipidomics_Pos
GFP_Lip_pos_38h_1.mzML
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Lipidomics_Pos
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Lipidomics_Pos
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Lipidomics_Pos
TL2_Lip_pos_06h_1.mzML
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Lipidomics_Pos
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Lipidomics_Pos
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Lipidomics_Pos
TL2_Lip_pos_24h_1.mzML
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Lipidomics_Pos
TL2_Lip_pos_24h_2.mzML
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Lipidomics_Pos
TL2_Lip_pos_24h_3.mzML
FILES
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Lipidomics_Pos
TL2_Lip_pos_38h_1.mzML
FILES
DERIVED_FILES
Lipidomics_Pos
TL2_Lip_pos_38h_2.mzML
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Lipidomics_Pos
TL2_Lip_pos_38h_3.mzML
FILES
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MetaboMS1posneg
Blank_Met_3.mzML
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MetaboMSnNeg
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FILES
DERIVED_FILES
MetaboMSnNeg
Pool_Met_neg_2.mzML
FILES
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MetaboMSnNeg
Pool_Met_neg_3.mzML
FILES
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MetaboMSnNeg
Pool_Met_neg_4.mzML
FILES
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Pool_Met_neg_5.mzML
FILES
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MetaboMSnPos
Pool_Met_pos_1.mzML
FILES
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Pool_Met_pos_2.mzML
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Pool_Met_pos_3.mzML
FILES
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Pool_Met_pos_4.mzML
FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Gene knockdown
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF.2
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IGNORED:  Assay_Protocol REF
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  Assay_Column type
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IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 81%|████████  | 1360/1674 [3:20:31<1:13:55, 14.13s/it]
 81%|████████▏ | 1361/1674 [3:20:39<1:03:51, 12.24s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 81%|████████▏ | 1362/1674 [3:20:43<51:14,  9.85s/it]  
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 1
Returning 52 rows!
Added 52 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS147
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10002
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-XS QTof: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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BMK230727-BM921-neg-050001-01.raw
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FILES
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FILES
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BMK230727-BM921-pos-050015-01.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Tissue
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10021
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
HFX9_1675552_CN_QC1.raw
FILES
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HFX9_1675552_CN_QC2.raw
FILES
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FILES
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HFX9_1675552_CN_blank.raw
FILES
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HFX9_CN1_FZTM230020439-1A.raw
FILES
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HFX9_CN1_FZTM230020440-1A.raw
FILES
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HFX9_CN1_FZTM230020441-1A.raw
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HFX9_CN2_FZTM230020442-1A.raw
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HFX9_CN2_FZTM230020443-1A.raw
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HFX9_CN2_FZTM230020444-1A.raw
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HFX9_CN3_FZTM230020445-1A.raw
FILES
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HFX9_CN3_FZTM230020446-1A.raw
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HFX9_CN3_FZTM230020447-1A.raw
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IGNORED:  Assay_Term Source REF.1
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 81%|████████▏ | 1363/1674 [3:20:49<43:52,  8.46s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 81%|████████▏ | 1364/1674 [3:20:54<38:19,  7.42s/it]
 82%|████████▏ | 1365/1674 [3:20:56<30:02,  5.83s/it]
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IGNORED:  Samples_Sample type
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Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10051
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Returning 70 rows!
Added 70 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10103
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10118
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS102
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10318
Request successful!
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HFX3_CP2_FZTM230001726-1A.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 82%|████████▏ | 1368/1674 [3:21:04<20:16,  3.97s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 82%|████████▏ | 1369/1674 [3:21:08<20:13,  3.98s/it]
FILES
POS
HFX3_CP2_FZTM230001727-1A.raw
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HFX3_CP2_FZTM230001728-1A.raw
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Number of rows removed due to not enough metadata: 0
Returning 52 rows!
Added 52 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10321
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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qiita_sample_name: ADDED!
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 20 rows!
Added 20 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10323
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
NC1_N.mzML
FILES
NC1_P.mzML
FILES
NC2_N.mzML
FILES
NC2_P.mzML
FILES
NC3_N.mzML
FILES
NC3_P.mzML
FILES
OE1_N.mzML
FILES
OE1_P.mzML
FILES
OE2_N.mzML
FILES
OE2_P.mzML
FILES
OE3_N.mzML
FILES
OE3_P.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 82%|████████▏ | 1370/1674 [3:21:12<19:51,  3.92s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 82%|████████▏ | 1371/1674 [3:21:16<20:12,  4.00s/it]
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10376
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
DERIVED_FILES
NEG
negC_10_1.mzXML
FILES
DERIVED_FILES
NEG
negC_10_3.mzXML
FILES
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negC_11_1.mzXML
FILES
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negC_11_3.mzXML
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negC_11_5.mzXML
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negC_12_1.mzXML
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negC_12_3.mzXML
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negC_12_5.mzXML
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negC_14_1.mzXML
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negC_14_3.mzXML
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negC_14_5.mzXML
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negC_15_1.mzXML
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posC_12_3.mzXML
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posC_12_5.mzXML
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posC_15_3.mzXML
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posC_15_5.mzXML
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POS
posC_9_3.mzXML
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POS
posC_9_5.mzXML
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POS
posQC01.mzXML
FILES
DERIVED_FILES
POS
posQC02.mzXML
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posQC04.mzXML
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POS
posQC05.mzXML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10416
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY77.raw
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RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY78.raw
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20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY80.raw
FILES
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20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY81.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY82.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY83.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY84.raw
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RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY85.raw
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RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY86.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY87.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY88.raw
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RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY89.raw
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20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY90.raw
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20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY92.raw
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20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY93.raw
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20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY95_pool1xa.raw
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20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY96_pool03xa.raw
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20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_AMY97_pool01xa.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_blank1.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_blank2.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_blank3.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_blank4.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_blank5.raw
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RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_blank6.raw
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_uAAs.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 82%|████████▏ | 1372/1674 [3:21:22<23:14,  4.62s/it]
FILES
RAW_FILES
20240109_QEF2_HILIC_RTM-iBMDMs_PLUS_il18_uQReSS.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Drug treatment
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Knock out genotype
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10435
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 7250 GC/Q-TOF: missing value
  Synapt XS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
GC-MS files
0013_DIP_R1.mzML
FILES
RAW_FILES
GC-MS files
0013_DIP_R2.mzML
FILES
RAW_FILES
GC-MS files
0013_DIP_R3.mzML
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0013_DIP_R4.mzML
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0013_DIP_R5.mzML
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GC-MS files
0013_DIP_R6.mzML
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0013_DIP_R7.mzML
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0013_DIP_R8.mzML
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0013_TET_R1.mzML
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9242_TET_R3.mzML
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Ploidy
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 192 rows!
Added 192 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10481
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Culture time
IGNORED:  Samples_Term Source REF.5
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IGNORED:  extension
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Isotopic labeling
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Processing
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 354 rows!
Added 354 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1051
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus BT TOFMS: missing value
  Agilent 6550 iFunnel Q-TOF: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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P0302_plasma_LCMS_positive_p61_p08.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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FILES
P0440_plasma_LCMS_positive_p113_p38.cdf
FILES
P0440_plasma_LCMS_positive_p114_p39.cdf
FILES
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P0440_plasma_LCMS_positive_p117_p42.cdf
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P0440_plasma_LCMS_positive_p118_p09.cdf
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Returning 252 rows!
Added 252 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10724
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10858
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1095
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11004
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11009
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11038
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Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11341
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11406
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11505/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 83%|████████▎ | 1384/1674 [3:22:15<14:43,  3.05s/it]
 83%|████████▎ | 1385/1674 [3:22:19<15:18,  3.18s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 83%|████████▎ | 1386/1674 [3:22:25<18:54,  3.94s/it]
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
20231103_Guada_Polar_T13.raw
FILES
20231103_Guada_Polar_T14.raw
FILES
20231103_Guada_Polar_T15.raw
FILES
20231103_Guada_Polar_T16.raw
FILES
20231103_Guada_Polar_T6.raw
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Returning 8 rows!
Added 8 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11656
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS117
Request successful!
SampleCollectionMethod: ADDED!
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DepthorAltitudeMeters: ADDED!
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FILES
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R48 I ESI+.cdf
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Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS119
Request successful!
SampleCollectionMethod: ADDED!
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FILES
130717_HILICPOS_16CF1A_Y.CDF
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130717_HILICPOS_16CF1A_Z.CDF
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130717_HILICPOS_16CF1B_Y.CDF
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130717_HILICPOS_16CF1B_Z.CDF
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FILES
130718_HILICNEG_16CF1A_X.CDF
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FILES
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FILES
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FILES
130718_HILICNEG_30DG2A_X.CDF
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
130718_HILICNEG_C2A_Z.CDF
FILES
130718_HILICNEG_C2B_X.CDF
FILES
130718_HILICNEG_C2B_Y.CDF
FILES
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FILES
130718_HILICNEG_C4A_X.CDF
FILES
130718_HILICNEG_C4A_Y.CDF
FILES
130718_HILICNEG_C4A_Z.CDF
FILES
130718_HILICNEG_C4B_X.CDF
FILES
130718_HILICNEG_C4B_Y.CDF
FILES
130718_HILICNEG_C4B_Z.CDF
FILES
130718_HILICNEG_D1A_X.CDF
FILES
130718_HILICNEG_D1A_Y.CDF
FILES
130718_HILICNEG_D1A_Z.CDF
FILES
130718_HILICNEG_D1B_X.CDF
FILES
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FILES
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FILES
130718_HILICNEG_I1A_X.CDF
FILES
130718_HILICNEG_I1A_Y.CDF
FILES
130718_HILICNEG_I1A_Z.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 83%|████████▎ | 1387/1674 [3:22:36<28:51,  6.03s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 83%|████████▎ | 1388/1674 [3:22:43<30:07,  6.32s/it]
FILES
130718_HILICNEG_I1B_X.CDF
FILES
130718_HILICNEG_I1B_Y.CDF
FILES
130718_HILICNEG_I1B_Z.CDF
FILES
130718_HILICNEG_J1A_X.CDF
FILES
130718_HILICNEG_J1A_Y.CDF
FILES
130718_HILICNEG_J1A_Z.CDF
FILES
130718_HILICNEG_J1B_X.CDF
FILES
130718_HILICNEG_J1B_Y.CDF
FILES
130718_HILICNEG_J1B_Z.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Growth Year
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 312 rows!
Added 312 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS126
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
FILES
Mouse 1 Blood HO control POS.mzML
FILES
Mouse 1 Dorsal skin HO control POS.mzML
FILES
Mouse 1 Liver HO control POS.mzML
FILES
Mouse 10 Blood Ma RESV POS.mzML
FILES
Mouse 10 Dorsal skin Ma RESV POS.mzML
FILES
Mouse 10 Liver Ma RESV POS.mzML
FILES
Mouse 11 Blood Ma RESV POS.mzML
FILES
Mouse 11 Dorsal skin Ma RESV POS.mzML
FILES
Mouse 11 Liver Ma RESV POS.mzML
FILES
Mouse 12 Blood Ma RESV POS.mzML
FILES
Mouse 12 Dorsal skin Ma RESV POS.mzML
FILES
Mouse 12 Liver Ma RESV POS.mzML
FILES
Mouse 13 Blood CMC control POS.mzML
FILES
Mouse 13 Dorsal skin CMC control POS.mzML
FILES
Mouse 13 Liver CMC control POS.mzML
FILES
Mouse 14 Blood CMC control POS.mzML
FILES
Mouse 14 Dorsal skin CMC control POS.mzML
FILES
Mouse 14 Liver CMC control POS.mzML
FILES
Mouse 15 Blood CMC control POS.mzML
FILES
Mouse 15 Dorsal skin CMC control POS.mzML
FILES
Mouse 15 Liver CMC control POS.mzML
FILES
Mouse 16 Blood CMC RESV POS.mzML
FILES
Mouse 16 Dorsal skin CMC RESV POS.mzML
FILES
Mouse 16 Liver CMC RESV POS.mzML
FILES
Mouse 17 Blood CMC RESV POS.mzML
FILES
Mouse 17 Dorsal skin CMC RESV POS.mzML
FILES
Mouse 17 Liver CMC RESV POS.mzML
FILES
Mouse 18 Blood CMC RESV POS.mzML
FILES
Mouse 18 Dorsal skin CMC RESV POS.mzML
FILES
Mouse 18 Liver CMC RESV POS.mzML
FILES
Mouse 19 Blood EtOH control POS.mzML
FILES
Mouse 19 Dorsal skin EtOH control POS.mzML
FILES
Mouse 19 Liver EtOH control POS.mzML
FILES
Mouse 2 Blood HO control POS.mzML
FILES
Mouse 2 Dorsal skin HO control POS.mzML
FILES
Mouse 2 Liver HO control POS.mzML
FILES
Mouse 20 Blood EtOH control POS.mzML
FILES
Mouse 20 Dorsal skin EtOH control POS.mzML
FILES
Mouse 20 Liver EtOH control POS.mzML
FILES
Mouse 21 Blood EtOH control POS.mzML
FILES
Mouse 21 Dorsal skin EtOH control POS.mzML
FILES
Mouse 21 Liver EtOH control POS.mzML
FILES
Mouse 22 Blood EtOH RESV POS.mzML
FILES
Mouse 22 Dorsal skin EtOH RESV POS.mzML
FILES
Mouse 22 Liver EtOH RESV POS.mzML
FILES
Mouse 23 Blood EtOH RESV POS.mzML
FILES
Mouse 23 Dorsal skin EtOH RESV POS.mzML
FILES
Mouse 23 Liver EtOH RESV POS.mzML
FILES
Mouse 24 Blood EtOH RESV POS.mzML
FILES
Mouse 24 Dorsal skin EtOH RESV POS.mzML
FILES
Mouse 24 Liver EtOH RESV POS.mzML
FILES
Mouse 3 Blood HO control POS.mzML
FILES
Mouse 3 Dorsal skin HO control POS.mzML
FILES
Mouse 3 Liver HO control POS.mzML
FILES
Mouse 4 Blood HO RESV POS.mzML
FILES
Mouse 4 Dorsal skin HO RESV POS.mzML
FILES
Mouse 4 Liver HO RESV POS.mzML
FILES
Mouse 5 Blood HO RESV POS.mzML
FILES
Mouse 5 Dorsal skin HO RESV POS.mzML
FILES
Mouse 5 Liver HO RESV POS.mzML
FILES
Mouse 6 Blood HO RESV POS.mzML
FILES
Mouse 6 Dorsal skin HO RESV POS.mzML
FILES
Mouse 6 Liver HO RESV POS.mzML
FILES
Mouse 7 Blood Ma control POS.mzML
FILES
Mouse 7 Dorsal skin Ma control POS.mzML
FILES
Mouse 7 Liver Ma control POS.mzML
FILES
Mouse 8 Blood Ma control POS.mzML
FILES
Mouse 8 Dorsal skin Ma control POS.mzML
FILES
Mouse 8 Liver Ma control POS.mzML
FILES
Mouse 9 Blood Ma control POS.mzML
FILES
Mouse 9 Dorsal skin Ma control POS.mzML
FILES
Mouse 9 Liver Ma control POS.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Tissue
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Base
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1301
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
FILES
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IGNORED:  Samples_Term Accession Number.2
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Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS131
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS132
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1326
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS133
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1430
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SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q: missing value
ENVOEnvironmentBiome:
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Sol_Seed_Leaf_75_0_25_1-B,3_01_2509.mzxml/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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Number of rows removed due to not enough metadata: 1
Returning 100 rows!
Added 100 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1495
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS15
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS16
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS162
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SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_BMI
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 84%|████████▎ | 1399/1674 [3:23:15<16:38,  3.63s/it]
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 64 rows!
Added 64 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS17
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Q-Tof Premier: missing value
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Exp2_CRR_14b_POS.CDF
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Exp2_CRR_15a_POS.CDF
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Exp2_CRR_15b_POS.CDF
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Exp2_CRR_16a_POS.CDF
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Exp2_CRR_16b_POS.CDF
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Exp2_CRR_17a_POS.CDF
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Exp2_CRR_18a_POS.CDF
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Exp2_CRR_18b_POS.CDF
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Exp2_CRR_19a_POS.CDF
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Exp2_CRR_21a_POS.CDF
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Exp2_CRR_21b_POS.CDF
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Exp2_CRR_22a_POS.CDF
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Exp2_CRR_22b_POS.CDF
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Exp2_CRR_23a_POS.CDF
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Exp2_CRR_23b_POS.CDF
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Exp2_CRR_24a_POS.CDF
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Exp2_CRR_24b_POS.CDF
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Exp2_CRR_25a_POS.CDF
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Exp2_CRR_25b_POS.CDF
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Exp2_CRR_26a_POS.CDF
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Exp2_CRR_26b_POS.CDF
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Exp2_CRR_27a_POS.CDF
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Exp2_CRR_27b_POS.CDF
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Exp2_CRR_28a_POS.CDF
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Exp2_CRR_28b_POS.CDF
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Exp2_CRR_29a_POS.CDF
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Exp2_CRR_29b_POS.CDF
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Exp2_CRR_2b_POS.CDF
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Exp2_CRR_30a_POS.CDF
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Exp2_CRR_31a_POS.CDF
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Exp2_CRR_31b_POS.CDF
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Exp2_CRR_32a_POS.CDF
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Exp2_CRR_32b_POS.CDF
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Exp2_CRR_33a_POS.CDF
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Exp2_CRR_33b_POS.CDF
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Exp2_CRR_34a_POS.CDF
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Exp2_CRR_35a_POS.CDF
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Exp2_CRR_35b_POS.CDF
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Exp2_CRR_36a_POS.CDF
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Exp2_CRR_36b_POS.CDF
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Exp2_CRR_37a_POS.CDF
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Exp2_CRR_38a_POS.CDF
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Exp2_CRR_38b_POS.CDF
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Exp2_CRR_39a_POS.CDF
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Exp2_CRR_40a_POS.CDF
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Exp2_CRR_44a_POS.CDF
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Exp2_CRR_44b_POS.CDF
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Exp2_CRR_45b_POS.CDF
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Exp2_CRR_46b_POS.CDF
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Exp2_CRR_47a_POS.CDF
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Exp2_CRR_47b_POS.CDF
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Exp2_CRR_48a_POS.CDF
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Exp2_CRR_48b_POS.CDF
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Exp2_CRR_49a_POS.CDF
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Exp2_CRR_49b_POS.CDF
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Exp2_CRR_4a_POS.CDF
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Exp2_CRR_4b_POS.CDF
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Exp2_CRR_50a_POS.CDF
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Exp2_CRR_8b_POS.CDF
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Exp2_HCC_10a_POS.CDF
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Exp2_HCC_11a_POS.CDF
FILES
Exp2_HCC_11b_POS.CDF
FILES
Exp2_HCC_12a_POS.CDF
FILES
Exp2_HCC_12b_POS.CDF
FILES
Exp2_HCC_13a_POS.CDF
FILES
Exp2_HCC_13b_POS.CDF
FILES
Exp2_HCC_14a_POS.CDF
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Exp2_HCC_14b_POS.CDF
FILES
Exp2_HCC_1a_POS.CDF
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Exp2_HCC_1b_POS.CDF
FILES
Exp2_HCC_2a_POS.CDF
FILES
Exp2_HCC_2b_POS.CDF
FILES
Exp2_HCC_3a_POS.CDF
FILES
Exp2_HCC_3b_POS.CDF
FILES
Exp2_HCC_4a_POS.CDF
FILES
Exp2_HCC_4b_POS.CDF
FILES
Exp2_HCC_5a_POS.CDF
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Exp2_HCC_5b_POS.CDF
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Exp2_HCC_6b_POS.CDF
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Exp2_HCC_7a_POS.CDF
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Exp2_HCC_7b_POS.CDF
FILES
Exp2_HCC_8a_POS.CDF
FILES
Exp2_HCC_8b_POS.CDF
FILES
Exp3_CRR_1a_POS.CDF
FILES
Exp3_CRR_1b_POS.CDF
FILES
Exp3_CRR_2a_POS.CDF
FILES
Exp3_CRR_2b_POS.CDF
FILES
Exp3_CRR_3a_POS.CDF
FILES
Exp3_CRR_3b_POS.CDF
FILES
Exp3_CRR_4a_POS.CDF
FILES
Exp3_CRR_4b_POS.CDF
FILES
Exp3_CRR_5a_POS.CDF
FILES
Exp3_CRR_5b_POS.CDF
FILES
Exp3_HCC_1a_POS.CDF
FILES
Exp3_HCC_1b_POS.CDF
FILES
Exp3_HCC_2a_POS.CDF
FILES
Exp3_HCC_2b_POS.CDF
FILES
Exp3_HCC_3a_POS.CDF
FILES
Exp3_HCC_3b_POS.CDF
FILES
Exp3_HCC_4a_POS.CDF
FILES
Exp3_HCC_4b_POS.CDF
FILES
Exp3_HCC_5a_POS.CDF
FILES
Exp3_HCC_5b_POS.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Experiment
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 84%|████████▎ | 1400/1674 [3:23:29<31:22,  6.87s/it]
 84%|████████▎ | 1401/1674 [3:23:31<23:58,  5.27s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 84%|████████▍ | 1402/1674 [3:23:45<36:03,  7.95s/it]
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Injection
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 524 rows!
Added 524 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1831
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS208
Request successful!
Taxonomy request failed. Retrying (attempt 1/3): HTTPSConnectionPool(host='eutils.ncbi.nlm.nih.gov', port=443): Max retries exceeded with url: /entrez/eutils/efetch.fcgi?db=taxonomy&id=3055 (Caused by NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7ebc4d4b0d00>: Failed to establish a new connection: [Errno 101] Network is unreachable'))
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus 4D: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
20111220_Chlamy_1_0h_1.cdf
FILES
20111220_Chlamy_1_12h_1.cdf
FILES
20111220_Chlamy_1_1h_1.cdf
FILES
20111220_Chlamy_1_24h_1.cdf
FILES
20111220_Chlamy_1_2h_1.cdf
FILES
20111220_Chlamy_1_30m_1.cdf
FILES
20111220_Chlamy_1_4h_1.cdf
FILES
20111220_Chlamy_1_6h_1.cdf
FILES
20111220_Chlamy_2_0h_1.cdf
FILES
20111220_Chlamy_2_12h_1.cdf
FILES
20111220_Chlamy_2_1h_1.cdf
FILES
20111220_Chlamy_2_24h_1.cdf
FILES
20111220_Chlamy_2_2h_1.cdf
FILES
20111220_Chlamy_2_30m_1.cdf
FILES
20111220_Chlamy_2_4h_1.cdf
FILES
20111220_Chlamy_2_6h_1.cdf
FILES
20111220_Chlamy_3_0h_1.cdf
FILES
20111220_Chlamy_3_12h_1.cdf
FILES
20111220_Chlamy_3_1h_1.cdf
FILES
20111220_Chlamy_3_24h_1.cdf
FILES
20111220_Chlamy_3_2h_1.cdf
FILES
20111220_Chlamy_3_6h_1.cdf
FILES
20111220_Chlamy_4_12h_1.cdf
FILES
20111220_Chlamy_4_1h_1.cdf
FILES
20111220_Chlamy_4_24h_1.cdf
FILES
20111220_Chlamy_4_4h_1.cdf
FILES
20111220_Chlamy_4_6h_1.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Nitrogen deprivation
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS213
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CELL_Glc12_05mM_Normo_04.mzXML
FILES
CELL_Glc12_05mM_Normo_05.mzXML
FILES
CELL_Glc12_05mM_Normo_06.mzXML
FILES
CELL_Glc12_25mM_Normo_16.mzXML
FILES
CELL_Glc12_25mM_Normo_17.mzXML
FILES
CELL_Glc12_25mM_Normo_18.mzXML
FILES
CELL_Glc13_05mM_Normo_01.mzXML
FILES
CELL_Glc13_05mM_Normo_02.mzXML
FILES
CELL_Glc13_05mM_Normo_03.mzXML
FILES
CELL_Glc13_25mM_Normo_13.mzXML
FILES
CELL_Glc13_25mM_Normo_14.mzXML
FILES
CELL_Glc13_25mM_Normo_15.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_D-glucose
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Label
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 84%|████████▍ | 1403/1674 [3:23:49<30:02,  6.65s/it]
 84%|████████▍ | 1404/1674 [3:23:51<24:04,  5.35s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 84%|████████▍ | 1405/1674 [3:23:58<26:28,  5.91s/it]
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS214
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2207
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap ID-X Tribrid: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
IROA_P1-6_DIA_test_neg1.mzML
FILES
IROA_P1-6_DIA_test_pos1.mzML
FILES
IROA_P1-6_ddMS2_neg_1Da.mzML
FILES
IROA_P1-6_ddMS2_pos_1Da.mzML
FILES
M3T-Std_Ecoli_neg_DDA_1mz.mzML
FILES
M3T-Std_Ecoli_neg_DIA_20mz.mzML
FILES
M3T-Std_Ecoli_pos_DDA_1mz.mzML
FILES
M3T-Std_Ecoli_pos_DIA_20mz.mzML
FILES
M3T-Std_Plasma_neg_DDA_1mz.mzML
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 8
Returning 14 rows!
Added 14 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS221
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Samples_Term Source REF.12/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 84%|████████▍ | 1406/1674 [3:24:15<40:54,  9.16s/it]
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Number of rows removed due to not enough metadata: 0
Returning 384 rows!
Added 384 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2289
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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IonizationSourceAndPolarity:
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ChromatographyAndPhase:
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UBERONBodyPartName:
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ENVOEnvironmentBiome:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 391 rows!
Added 391 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS229
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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ENVOEnvironmentBiome:
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IGNORED:  Is Multicellular/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 39 rows!
Added 39 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2291
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 432 rows!
Added 432 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS239
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS24
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2522
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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  Thermo Scientific LTQ Orbitrap Classic: missing value
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
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ENVOEnvironmentBiome:
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.8
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 946
Returning 951 rows!
Added 951 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2712
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2716
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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UBERONBodyPartName:
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ENVOEnvironmentBiome:
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POS/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Cellular component
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 9
Returning 151 rows!
Added 151 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS272
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS28
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Q-Tof Premier: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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20081009_NIH_EWY_NEG_1121.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Smoking
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Race
IGNORED:  filepath
IGNORED:  Samples_Sample Type
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 2010 rows!
Added 2010 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2838
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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S900.LMG1810.QE009587.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Nitrate + Nitrite
IGNORED:  Samples_Depth Group
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Deployment
IGNORED:  Samples_Unit.5
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Depth
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Assay_Resolution
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Signal range
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Term Accession Number.13
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_CTD Cast Number
IGNORED:  keep
IGNORED:  extension
IGNORED:  Samples_Station
IGNORED:  Is Organ
IGNORED:  Samples_Term Source REF.13
IGNORED:  Samples_Term Accession Number.14
IGNORED:  Samples_Unit.3
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Longitude
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Unit.4
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Filter Volume
IGNORED:  Samples_Term Source REF.14
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Latitude
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_Phosphate
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Term Accession Number.15
IGNORED:  Is Descendant
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Unit.6
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_UTC Date and Time
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_CTD Water Temperature
IGNORED:  Samples_Term Source REF.15
Number of rows removed due to not enough metadata: 0
Returning 1054 rows!
Added 1054 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS284
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
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IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 85%|████████▍ | 1418/1674 [3:27:16<1:28:13, 20.68s/it]
 85%|████████▍ | 1419/1674 [3:27:23<1:10:25, 16.57s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 85%|████████▍ | 1420/1674 [3:27:31<58:42, 13.87s/it]  
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
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Number of rows removed due to not enough metadata: 0
Returning 500 rows!
Added 500 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS29
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2980
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  LECO Pegasus III: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.8
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Number of rows removed due to not enough metadata: 2
Returning 64 rows!
Added 64 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2984
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Shimadzu GCMS-QP2010 Ultra: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 85%|████████▍ | 1421/1674 [3:27:35<46:41, 11.07s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 85%|████████▍ | 1422/1674 [3:27:40<38:32,  9.18s/it]
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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FILES
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_gene knockout
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 63 rows!
Added 63 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS300
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Method 4 urine/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 3940 rows!
Added 3940 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3003
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3020
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3154
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3174
Request successful!
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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 85%|████████▌ | 1427/1674 [3:29:35<48:27, 11.77s/it]
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Returning 48 rows!
Added 48 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3177
Request successful!
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
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IGNORED:  base
IGNORED:  Samples_Term Source REF.5
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IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Salinity
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 85%|████████▌ | 1428/1674 [3:29:51<54:18, 13.24s/it]
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 79
Returning 365 rows!
Added 365 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3201
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus 4D: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Experimental Group
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Side
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Column type 1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Column model 2
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Shelf Life
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Wine
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Bottle Glass Color
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Column model 1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Date
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Samples_Wine Type
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type 2
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 362 rows!
Added 362 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3235
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 25 rows!
Added 25 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3251
Request successful!
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7C.mzXML
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8S.mzXML
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Returning 26 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS327
Request successful!
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Country: ADDED!
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20121128a__001__67__XW.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▌ | 1432/1674 [3:30:27<36:54,  9.15s/it]
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Returning 39 rows!
Added 39 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3286
Request successful!
SampleCollectionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▌ | 1433/1674 [3:30:42<44:02, 10.96s/it]
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Number of rows removed due to not enough metadata: 0
Returning 214 rows!
Added 107 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3305
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
ENVOEnvironmentBiome:
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IGNORED:  Samples_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▌ | 1434/1674 [3:30:49<39:01,  9.76s/it]
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Autosampler model
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Number of rows removed due to not enough metadata: 0
Returning 82 rows!
Added 82 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3306
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Samples_Term Accession Number.4
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IGNORED:  extension
IGNORED:  Is Organ/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▌ | 1435/1674 [3:30:56<36:13,  9.10s/it]
IGNORED:  Samples_Sample Name
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IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3318
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Cohort
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▌ | 1436/1674 [3:31:05<35:29,  8.95s/it]
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Native spectrum identifier format
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Assay_Detector mode
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IGNORED:  extension
IGNORED:  Is Organ
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IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 80 rows!
Added 80 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3320
Request successful!
Taxonomy request failed. Retrying (attempt 1/3): HTTPSConnectionPool(host='eutils.ncbi.nlm.nih.gov', port=443): Max retries exceeded with url: /entrez/eutils/efetch.fcgi?db=taxonomy&id=4530 (Caused by NewConnectionError('<urllib3.connection.HTTPSConnection object at 0x7ebc3d71d5e0>: Failed to establish a new connection: [Errno 101] Network is unreachable'))
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
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IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
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IGNORED:  Samples_Sample Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▌ | 1437/1674 [3:31:28<51:29, 13.04s/it]
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Number of rows removed due to not enough metadata: 0
Returning 252 rows!
Added 252 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3322
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Tracer
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Sampling time
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 676 rows!
Added 676 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3323
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Waters SYNAPT G2 HDMS System: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Meso_C8_MRM1_M501_p_20201214_2202.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▌ | 1439/1674 [3:32:00<57:02, 14.56s/it]
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Tara19_Endo_C8_TR2-5_p_20200122_1601.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Cell count
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Phytoplankton bloom phase
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Accession Number.16
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IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Susceptibility to infection
IGNORED:  Samples_Viral infection
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Batch number
IGNORED:  Samples_Term Accession Number.13
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_Biological replicate
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Term Source REF.13
IGNORED:  Samples_Term Accession Number.14
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Source REF.14
IGNORED:  Samples_Collection bag
IGNORED:  Samples_EhV treatment
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
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IGNORED:  Samples_Variant
IGNORED:  Samples_Experiment
IGNORED:  Samples_Filtered volume
IGNORED:  filename_lower
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IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Term Accession Number.15
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Extraction standards
IGNORED:  Samples_Term Source REF.16
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Term Source REF.15
Number of rows removed due to not enough metadata: 0
Returning 373 rows!
Added 373 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3341
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
DERIVED_FILES
NEG
10Neg.mzML
FILES
DERIVED_FILES
NEG
11Neg.mzML
FILES
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NEG
12Neg.mzML
FILES
DERIVED_FILES
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13Neg.mzML
FILES
DERIVED_FILES
NEG
14Neg.mzML
FILES
DERIVED_FILES
NEG
15Neg.mzML
FILES
DERIVED_FILES
NEG
16Neg.mzML
FILES
DERIVED_FILES
NEG
17Neg.mzML
FILES
DERIVED_FILES
NEG
18Neg.mzML
FILES
DERIVED_FILES
NEG
19Neg.mzML
FILES
DERIVED_FILES
NEG
1Neg.mzML
FILES
DERIVED_FILES
NEG
2Neg.mzML
FILES
DERIVED_FILES
NEG
3Neg.mzML
FILES
DERIVED_FILES
NEG
4Neg.mzML
FILES
DERIVED_FILES
NEG
5Neg.mzML
FILES
DERIVED_FILES
NEG
6Neg.mzML
FILES
DERIVED_FILES
NEG
7Neg.mzML
FILES
DERIVED_FILES
NEG
8Neg.mzML
FILES
DERIVED_FILES
NEG
9Neg.mzML
FILES
DERIVED_FILES
POS
10Pos.mzML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Frail Scale
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
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IGNORED:  Assay_Derivatization
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
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IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3342
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_03.mzML
FILES
Additional Sample MZML
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_12.mzML
FILES
Additional Sample MZML
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_03.mzML
FILES
Additional Sample MZML
Method 2
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FILES
Additional Sample MZML
Method 3
QXA09NEG20210521_CNRS0121VS_HUMAN_XENOGRAFT1_03.mzML
FILES
Additional Sample MZML
Method 3
QXA09NEG20210521_CNRS0121VS_HUMAN_XENOGRAFT1_12.mzML
FILES
Additional Sample MZML
Method 4
QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_03.mzML
FILES
Additional Sample MZML
Method 4
QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_12.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_05.mzML
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CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_06.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_11.mzML
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CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_13.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_17.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_19.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_20.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_21.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_24.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_25.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT1_27.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_03.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_04.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_05.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_11.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_15.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_17.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_19.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_21.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_23.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_24.mzML
FILES
CTRL_IACS
Method 1
QXA10POSEAR20210513_CNRS0121VS_HUMAN_XENOGRAFT2_26.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_05.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_06.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_11.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_13.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_17.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_19.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_20.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_21.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_24.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_25.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT1_27.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT2_03.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT2_04.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT2_05.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT2_11.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT2_15.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT2_17.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT2_19.mzML
FILES
CTRL_IACS
Method 2
QXA10POSLAT20210513_CNRS0121VS_HUMAN_XENOGRAFT2_21.mzML
FILES
CTRL_IACS
Method 2
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FILES
CTRL_IACS
Method 2
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FILES
CTRL_IACS
Method 2
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CTRL_IACS
Method 3
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CTRL_IACS
Method 3
QXA09NEG20210521_CNRS0121VS_HUMAN_XENOGRAFT1_06.mzML
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CTRL_IACS
Method 3
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CTRL_IACS
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CTRL_IACS
Method 3
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CTRL_IACS
Method 3
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FILES
CTRL_IACS
Method 3
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CTRL_IACS
Method 3
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FILES
CTRL_IACS
Method 3
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FILES
CTRL_IACS
Method 3
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CTRL_IACS
Method 3
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FILES
CTRL_IACS
Method 3
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FILES
CTRL_IACS
Method 3
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FILES
CTRL_IACS
Method 3
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FILES
CTRL_IACS
Method 3
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CTRL_IACS
Method 3
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CTRL_IACS
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FILES
CTRL_IACS
Method 3
QXA09NEG20210521_CNRS0121VS_HUMAN_XENOGRAFT2_19.mzML
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CTRL_IACS
Method 3
QXA09NEG20210521_CNRS0121VS_HUMAN_XENOGRAFT2_21.mzML
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QXA09NEG20210521_CNRS0121VS_HUMAN_XENOGRAFT2_23.mzML
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QXA09NEG20210521_CNRS0121VS_HUMAN_XENOGRAFT2_24.mzML
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CTRL_IACS
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QXA09NEG20210521_CNRS0121VS_HUMAN_XENOGRAFT2_26.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_05.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_06.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_11.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_13.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_17.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_19.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_20.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT1_25.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT2_04.mzML
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QXA08POL20210513_CNRS0121VS_HUMAN_XENOGRAFT2_05.mzML
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Tumor_PDX
Method 1
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Tumor_PDX
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QXA10POSLAT20210513_CNRS0121VS_HUMAN_TUMOR1_09.mzML
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QXA10POSLAT20210513_CNRS0121VS_HUMAN_TUMOR1_12.mzML
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Tumor_PDX
Method 2
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Tumor_PDX
Method 3
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QXA09NEG20210521_CNRS0121VS_HUMAN_TUMOR1_04.mzML
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QXA09NEG20210521_CNRS0121VS_HUMAN_TUMOR1_06.mzML
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Tumor_PDX
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QXA09NEG20210521_CNRS0121VS_HUMAN_TUMOR1_07.mzML
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Tumor_PDX
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QXA09NEG20210521_CNRS0121VS_HUMAN_TUMOR1_09.mzML
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Tumor_PDX
Method 3
QXA09NEG20210521_CNRS0121VS_HUMAN_TUMOR1_11.mzML
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Tumor_PDX
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QXA09NEG20210521_CNRS0121VS_HUMAN_TUMOR1_12.mzML
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Tumor_PDX
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Tumor_PDX
Method 4
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Tumor_PDX
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QXA08POL20210513_CNRS0121VS_HUMAN_TUMOR1_04.mzML
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Tumor_PDX
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Tumor_PDX
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QXA08POL20210513_CNRS0121VS_HUMAN_TUMOR1_07.mzML
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Tumor_PDX
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QXA08POL20210513_CNRS0121VS_HUMAN_TUMOR1_09.mzML
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Tumor_PDX
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Tumor_PDX
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QXA08POL20210513_CNRS0121VS_HUMAN_TUMOR1_12.mzML
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Tumor_PDX
Method 4
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IGNORED:  Samples_Client Sample ID
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_IACS Response
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Samples_Treatment
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Publication Sample ID
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Samples_Biosample
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▌ | 1441/1674 [3:32:20<47:58, 12.35s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▌ | 1442/1674 [3:32:25<39:15, 10.15s/it]
Number of rows removed due to not enough metadata: 0
Returning 128 rows!
Added 128 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3358
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus HT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (alternating): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
KO-1_1.cdf
FILES
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KO-2_1.cdf
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KO-3_1.cdf
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KO-4_1.cdf
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WT-2_1.cdf
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WT-3_1.cdf
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
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IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
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IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 8 rows!
Added 8 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3415
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 3
Returning 212 rows!
Added 212 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3505
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3518
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SampleCollectionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 70 rows!
Added 70 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3540
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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HealthStatus: ADDED!
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 152 rows!
Added 152 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3558
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 86%|████████▋ | 1447/1674 [3:33:11<38:31, 10.18s/it]
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 54
Returning 127 rows!
Added 127 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3581
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Agilent 6550 iFunnel Q-TOF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_BLD_7.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_BLD_7_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_CEC_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_CEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_FEC_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_FEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_LVR_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_LVR_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_UR_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_10cmPoroshell120HPHC18_UR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_10_Neg_BCPN_10uM.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_BLD_7.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_BLD_7_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_CEC_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_CEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_FEC_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_FEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_LVR_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_LVR_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_UR_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_10cmPoroshell120HPHC18_UR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_20_Neg_BCPN_10uM.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_BLD_7.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_BLD_7_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_CEC_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_CEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_FEC_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_FEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_LVR_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_LVR_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_UR_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_10cmPoroshell120HPHC18_UR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_MSMS_40_Neg_BCPN_10uM.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_10.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_10A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_10A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_10_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_6.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_6A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_6A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_6_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_7.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_7A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_7A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_7_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_8.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_8_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_9.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_9A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_9A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_BLD_9_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_CEC_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_CEC_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_CEC_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_CEC_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_CEC_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_CEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_CEC_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_CEC_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_CEC_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_10A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_10A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_10_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_10_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_6A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_6A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_6_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_6_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_7A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_7A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_7_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_7_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_8A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_8A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_8A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_8_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_8_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_9A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_9A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_9_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_9_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_FEC_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_KID_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_KID_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_KID_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_KID_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_KID_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_KID_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_KID_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_KID_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_KID_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LI_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LI_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LI_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LI_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LI_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LI_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LI_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LI_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LI_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LVR_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LVR_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LVR_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LVR_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LVR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LVR_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LVR_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LVR_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_LVR_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_PL_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_PL_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_PL_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_PL_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_PL_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_PL_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_PL_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_PL_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_PL_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_REC_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_REC_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_REC_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_REC_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_REC_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_REC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_REC_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_REC_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_REC_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI1_10A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI1_10_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI1_6A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI1_6_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI1_7A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI1_7_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI1_8_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI1_9A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI1_9_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI2_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI2_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI2_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI2_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI2_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI2_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI2_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI2_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI2_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI3_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI3_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI3_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI3_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI3_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI3_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI3_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI3_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_SI3_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_STC_10A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_STC_10_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_STC_6A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_STC_6_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_STC_7A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_STC_7_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_STC_8_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_STC_9A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_STC_9_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_10A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_10A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_10_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_10_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_6A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_6A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_6_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_6_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_7A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_7A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_7_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_7_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_8A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_8A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_8A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_8_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_8_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_9A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_9A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_9_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_9_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshell120HPHC18_UR_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.01953125uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.01953125uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.0390625uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.0390625uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.078125uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.078125uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.15625uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.15625uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.3125uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.3125uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.625uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_0.625uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_1.25uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_1.25uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_10uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_10uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_2.5uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_2.5uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_5uM_BCPN_0213.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
NEG
6550_Neg_10cmPoroshellHPHC18_5uM_BCPN_0214.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_10_Pos_10cmPoroshell120HPHC18_UR_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_10_Pos_10cmPoroshell120HPHC18_UR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_10_Pos_BBN_10uM.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_20_Pos_10cmPoroshell120HPHC18_UR_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_20_Pos_10cmPoroshell120HPHC18_UR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_20_Pos_BBN_10uM.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_20_Pos_BBN_1uM.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_40_Pos_10cmPoroshell120HPHC18_UR_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_40_Pos_10cmPoroshell120HPHC18_UR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_MSMS_40_Pos_BBN_10uM.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_10.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_10A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_10A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_10_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_6.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_6A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_6A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_6_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_7.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_7A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_7A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_7_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_8.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_8_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_9.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_9A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_9A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_BLD_9_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_CEC_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_10A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_10A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_10_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_10_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_6A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_6A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_6_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_6_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_7A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_7A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_7_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_7_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_8A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_8A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_8_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_8_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_9A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_9A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_9_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_9_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_FEC_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_KID_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LI_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_LVR_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_PL_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_REC_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_10.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_10A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_10A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_10_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_6.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_6A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_6A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_6_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_7.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_7A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_7A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_7_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_8.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_8_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_9.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_9A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_9A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI1_9_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI2_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_SI3_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_10.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_10A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_10A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_10_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_6.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_6A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_6A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_6_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_7.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_7A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_7A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_7_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_8.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_8_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_9.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_9A.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_9A_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_STC_9_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_10A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_10A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_10A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_10A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_10_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_10_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_10_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_10_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_6A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_6A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_6A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_6A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_6_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_6_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_6_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_6_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_7A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_7A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_7A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_7A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_7_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_7_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_7_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_7_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_8A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_8A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_8_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_8_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_8_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_8_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_9A_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_9A_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_9A_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_9A_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_9_6wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_9_6wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_9_7wk.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshell120HPHC18_UR_9_7wk_degluc.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.01953125uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.01953125uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.01953125uM_BBN_20210212.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.0390625uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.0390625uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.0390625uM_BBN_20210212.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.078125uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.078125uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.078125uM_BBN_20210212.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.15625uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.15625uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.15625uM_BBN_20210212.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.3125uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.3125uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.3125uM_BBN_20210212.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.625uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.625uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_0.625uM_BBN_20210212.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_1.25uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_1.25uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_1.25uM_BBN_20210212.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_10uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_10uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_10uM_BBN_20210212.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_2.5uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_2.5uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_2.5uM_BBN_20210212.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_5uM_BBN.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_5uM_BBN_0215.d
FILES
RAW_FILES
20210211_6_7wk_Invivo
POS
6550_Pos_10cmPoroshellHPHC18_5uM_BBN_20210212.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R1_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R1_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R2_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R2_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R3_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R3_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R4_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R4_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R5_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R5_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R6_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_Eflex_R6_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R1_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R1_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R2_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R2_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R3_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R3_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R4_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R4_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R5_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R5_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R6_CEC1.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_BBN_2wk_GF_R6_CEC2.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_wash01.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_wash02.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_wash03.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_10cmPoroshell120HPHC18_wash04.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R1_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R2_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R2_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R3_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R3_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R4_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R4_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R5_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R5_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R6_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_Eflex_R6_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R1_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R1_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R2_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R2_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R3_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R3_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R4_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R4_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R5_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R5_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R6_BLD.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_BBN_2wk_GF_R6_PL.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_Nitrosamines_1uM_165V.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_wash02.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_wash03.d
FILES
RAW_FILES
20220614_Eflex_GF_2wk
NEG
6546_Neg_5cmZorbaxEclipseC18_wash04.d
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OtherNitrosamines/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Bbn treatment length
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Abx treatment
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Id
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 78
Returning 2879 rows!
Added 2879 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3683
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
  LECO Pegasus HT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
LC-MS
NEG
LW-1.mzXML
FILES
DERIVED_FILES
LC-MS
NEG
LW-10.mzXML
FILES
DERIVED_FILES
LC-MS
NEG
LW-11.mzXML
FILES
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NEG
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FILES
DERIVED_FILES
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NEG
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NEG
LW-14.mzXML
FILES
DERIVED_FILES
LC-MS
NEG
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FILES
DERIVED_FILES
LC-MS
NEG
LW-16.mzXML
FILES
DERIVED_FILES
LC-MS
NEG
LW-17.mzXML
FILES
DERIVED_FILES
LC-MS
NEG
LW-18.mzXML
FILES
DERIVED_FILES
LC-MS
NEG
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FILES
DERIVED_FILES
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NEG
LW-2.mzXML
FILES
DERIVED_FILES
LC-MS
NEG
LW-20.mzXML
FILES
DERIVED_FILES
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NEG
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FILES
DERIVED_FILES
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NEG
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FILES
DERIVED_FILES
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NEG
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FILES
DERIVED_FILES
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NEG
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FILES
DERIVED_FILES
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NEG
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FILES
DERIVED_FILES
LC-MS
NEG
LW-8.mzXML
FILES
DERIVED_FILES
LC-MS
NEG
LW-9.mzXML
FILES
DERIVED_FILES
LC-MS
NEG
QC01.mzXML
FILES
DERIVED_FILES
LC-MS
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 87%|████████▋ | 1449/1674 [3:34:21<1:16:04, 20.29s/it]
 87%|████████▋ | 1450/1674 [3:34:24<56:17, 15.08s/it]  /app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 87%|████████▋ | 1451/1674 [3:34:31<47:11, 12.70s/it]NEG
QC02.mzXML
FILES
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NEG
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FILES
RAW_FILES
GC-MS
LW-1.cdf
FILES
RAW_FILES
GC-MS
LW-10.cdf
FILES
RAW_FILES
GC-MS
LW-11.cdf
FILES
RAW_FILES
GC-MS
LW-12.cdf
FILES
RAW_FILES
GC-MS
LW-13.cdf
FILES
RAW_FILES
GC-MS
LW-14.cdf
FILES
RAW_FILES
GC-MS
LW-15.cdf
FILES
RAW_FILES
GC-MS
LW-16.cdf
FILES
RAW_FILES
GC-MS
LW-17.cdf
FILES
RAW_FILES
GC-MS
LW-18.cdf
FILES
RAW_FILES
GC-MS
LW-19.cdf
FILES
RAW_FILES
GC-MS
LW-2.cdf
FILES
RAW_FILES
GC-MS
LW-20.cdf
FILES
RAW_FILES
GC-MS
LW-3.cdf
FILES
RAW_FILES
GC-MS
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FILES
RAW_FILES
GC-MS
LW-5.cdf
FILES
RAW_FILES
GC-MS
LW-6.cdf
FILES
RAW_FILES
GC-MS
LW-7.cdf
FILES
RAW_FILES
GC-MS
LW-8.cdf
FILES
RAW_FILES
GC-MS
LW-9.cdf
FILES
RAW_FILES
GC-MS
QC01.cdf
FILES
RAW_FILES
GC-MS
QC02.cdf
FILES
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GC-MS
QC03.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Diet
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Assay_Derived Spectral Data File.1
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 46 rows!
Added 46 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS372
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3725
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF-Q II: missing value
ChromatographyAndPhase:
   (C18): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
Ctrl1_NEG.raw
FILES
RAW_FILES
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Ctrl3_NEG.raw
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FILES
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FILES
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FILES
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FILES
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POS
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3750
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NEG
IP1-Sample005negtive.mzML
FILES
DERIVED_FILES
NEG
IP10-Sample015negtive.mzML
FILES
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NEG
IP11-Sample016negtive.mzML
FILES
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NEG
IP12-Sample017negtive.mzML
FILES
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NEG
IP13-Sample020negtive.mzML
FILES
DERIVED_FILES
NEG
IP14-Sample021negtive.mzML
FILES
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NEG
IP15-Sample022negtive.mzML
FILES
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IP16-Sample023negtive.mzML
FILES
DERIVED_FILES
NEG
IP17-Sample024negtive.mzML
FILES
DERIVED_FILES
NEG
IP18-Sample025negtive.mzML
FILES
DERIVED_FILES
NEG
IP19-Sample027negtive.mzML
FILES
DERIVED_FILES
NEG
IP2-Sample006negtive.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 87%|████████▋ | 1452/1674 [3:34:36<38:23, 10.38s/it]
FILES
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IP20-Sample028negtive.mzML
FILES
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FILES
DERIVED_FILES
NEG
IP22-Sample030negtive.mzML
FILES
DERIVED_FILES
NEG
IP23-Sample031negtive.mzML
FILES
DERIVED_FILES
NEG
IP24-Sample032negtive.mzML
FILES
DERIVED_FILES
NEG
IP25-Sample035negtive.mzML
FILES
DERIVED_FILES
NEG
IP26-Sample036negtive.mzML
FILES
DERIVED_FILES
NEG
IP27-Sample037negtive.mzML
FILES
DERIVED_FILES
NEG
IP28-Sample038negtive.mzML
FILES
DERIVED_FILES
NEG
IP29-Sample039negtive.mzML
FILES
DERIVED_FILES
NEG
IP3-Sample007negtive.mzML
FILES
DERIVED_FILES
NEG
IP30-Sample040negtive.mzML
FILES
DERIVED_FILES
NEG
IP4-Sample008negtive.mzML
FILES
DERIVED_FILES
NEG
IP5-Sample009negtive.mzML
FILES
DERIVED_FILES
NEG
IP6-Sample010negtive.mzML
FILES
DERIVED_FILES
NEG
IP7-Sample012negtive.mzML
FILES
DERIVED_FILES
NEG
IP8-Sample013negtive.mzML
FILES
DERIVED_FILES
NEG
IP9-Sample014negtive.mzML
FILES
DERIVED_FILES
NEG
QC1-Sample002negtive.mzML
FILES
DERIVED_FILES
NEG
QC2-Sample003negtive.mzML
FILES
DERIVED_FILES
NEG
QC3-Sample018negtive.mzML
FILES
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NEG
QC4-Sample033negtive.mzML
FILES
DERIVED_FILES
NEG
QC5-Sample048negtive.mzML
FILES
DERIVED_FILES
NEG
QC6-Sample056negtive.mzML
FILES
DERIVED_FILES
NEG
QC7-Sample057negtive.mzML
FILES
DERIVED_FILES
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IP1-Sample062positive.mzML
FILES
DERIVED_FILES
POS
IP10-Sample072positive.mzML
FILES
DERIVED_FILES
POS
IP11-Sample073positive.mzML
FILES
DERIVED_FILES
POS
IP12-Sample074positive.mzML
FILES
DERIVED_FILES
POS
IP13-Sample077positive.mzML
FILES
DERIVED_FILES
POS
IP14-Sample078positive.mzML
FILES
DERIVED_FILES
POS
IP15-Sample079positive.mzML
FILES
DERIVED_FILES
POS
IP16-Sample080positive.mzML
FILES
DERIVED_FILES
POS
IP17-Sample081positive.mzML
FILES
DERIVED_FILES
POS
IP18-Sample082positive.mzML
FILES
DERIVED_FILES
POS
IP19-Sample084positive.mzML
FILES
DERIVED_FILES
POS
IP2-Sample063positive.mzML
FILES
DERIVED_FILES
POS
IP20-Sample085positive.mzML
FILES
DERIVED_FILES
POS
IP21-Sample086positive.mzML
FILES
DERIVED_FILES
POS
IP22-Sample087positive.mzML
FILES
DERIVED_FILES
POS
IP23-Sample088positive.mzML
FILES
DERIVED_FILES
POS
IP24-Sample089positive.mzML
FILES
DERIVED_FILES
POS
IP25-Sample092positive.mzML
FILES
DERIVED_FILES
POS
IP26-Sample093positive.mzML
FILES
DERIVED_FILES
POS
IP27-Sample094positive.mzML
FILES
DERIVED_FILES
POS
IP28-Sample095positive.mzML
FILES
DERIVED_FILES
POS
IP29-Sample096positive.mzML
FILES
DERIVED_FILES
POS
IP3-Sample064positive.mzML
FILES
DERIVED_FILES
POS
IP30-Sample097positive.mzML
FILES
DERIVED_FILES
POS
IP4-Sample065positive.mzML
FILES
DERIVED_FILES
POS
IP5-Sample066positive.mzML
FILES
DERIVED_FILES
POS
IP6-Sample067positive.mzML
FILES
DERIVED_FILES
POS
IP7-Sample069positive.mzML
FILES
DERIVED_FILES
POS
IP8-Sample070positive.mzML
FILES
DERIVED_FILES
POS
IP9-Sample071positive.mzML
FILES
DERIVED_FILES
POS
QC1-Sample059positive.mzML
FILES
DERIVED_FILES
POS
QC2-Sample060positive.mzML
FILES
DERIVED_FILES
POS
QC3-Sample075positive.mzML
FILES
DERIVED_FILES
POS
QC4-Sample090positive.mzML
FILES
DERIVED_FILES
POS
QC5-Sample105positive.mzML
FILES
DERIVED_FILES
POS
QC6-Sample113positive.mzML
FILES
DERIVED_FILES
POS
QC7-Sample114positive.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 74 rows!
Added 74 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3786
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 172 rows!
Added 172 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3830
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
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4910.6day.03.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Replicate
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IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  filepath
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IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 172 rows!
Added 172 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3840
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 87%|████████▋ | 1455/1674 [3:35:01<33:03,  9.06s/it]
 87%|████████▋ | 1456/1674 [3:35:03<25:14,  6.95s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 87%|████████▋ | 1457/1674 [3:35:08<22:45,  6.29s/it]
 87%|████████▋ | 1458/1674 [3:35:10<18:01,  5.01s/it]
DERIVED_FILES
G2-1.mzML
FILES
DERIVED_FILES
G2-2.mzML
FILES
DERIVED_FILES
G3-1.mzML
FILES
DERIVED_FILES
G3-2.mzML
FILES
DERIVED_FILES
G4-1.mzML
FILES
DERIVED_FILES
G4-2.mzML
FILES
DERIVED_FILES
G5-1.mzML
FILES
DERIVED_FILES
G5-2.mzML
FILES
DERIVED_FILES
G6-1.mzML
FILES
DERIVED_FILES
G6-2.mzML
FILES
DERIVED_FILES
H1-1.mzML
FILES
DERIVED_FILES
H1-2.mzML
FILES
DERIVED_FILES
H2-1.mzML
FILES
DERIVED_FILES
H2-2.mzML
FILES
DERIVED_FILES
H3-1.mzML
FILES
DERIVED_FILES
H3-2.mzML
FILES
DERIVED_FILES
H4-1.mzML
FILES
DERIVED_FILES
H4-2.mzML
FILES
DERIVED_FILES
H5-1.mzML
FILES
DERIVED_FILES
H5-2.mzML
FILES
DERIVED_FILES
mixstandard-1.mzML
FILES
DERIVED_FILES
mixstandard-2.mzML
FILES
DERIVED_FILES
mixstandard-3.mzML
FILES
DERIVED_FILES
mixstandard-4.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
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IGNORED:  Is Fluid
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IGNORED:  extension
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IGNORED:  Samples_Fruit Wine
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_Biological Replicate
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Technical Replicate
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3860
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3923
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977A MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
100-1.D
FILES
RAW_FILES
100-2.D
FILES
RAW_FILES
100-3.D
FILES
RAW_FILES
100-4.D
FILES
RAW_FILES
100-5.D
FILES
RAW_FILES
100-6.D
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RAW_FILES
50-1.D
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RAW_FILES
50-2.D
FILES
RAW_FILES
50-3.D
FILES
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50-4.D
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50-5.D
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50-6.D
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RAW_FILES
C-1.D
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RAW_FILES
C-2.D
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RAW_FILES
C-4.D
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C-5.D
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RAW_FILES
C-6.D
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QC-2.D
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QC-3.D
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RAW_FILES
QC-4.D
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Concentration
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Protocol REF
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
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IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 21 rows!
Added 21 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3943
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3956
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 5500: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
Arg-1.mzML
FILES
DERIVED_FILES
Arg-2.mzML
FILES
DERIVED_FILES
Arg-3.mzML
FILES
DERIVED_FILES
Arg-4.mzML
FILES
DERIVED_FILES
Arg-5.mzML
FILES
DERIVED_FILES
Arg-6.mzML
FILES
DERIVED_FILES
His-1.mzML
FILES
DERIVED_FILES
His-2.mzML
FILES
DERIVED_FILES
His-3.mzML
FILES
DERIVED_FILES
His-4.mzML
FILES
DERIVED_FILES
His-5.mzML
FILES
DERIVED_FILES
His-6.mzML
FILES
DERIVED_FILES
Ile-1.mzML
FILES
DERIVED_FILES
Ile-2.mzML
FILES
DERIVED_FILES
Ile-3.mzML
FILES
DERIVED_FILES
Ile-4.mzML
FILES
DERIVED_FILES
Ile-5.mzML
FILES
DERIVED_FILES
Ile-6.mzML
FILES
DERIVED_FILES
Leu-1.mzML
FILES
DERIVED_FILES
Leu-2.mzML
FILES
DERIVED_FILES
Leu-3.mzML
FILES
DERIVED_FILES
Leu-4.mzML
FILES
DERIVED_FILES
Leu-5.mzML
FILES
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 87%|████████▋ | 1459/1674 [3:35:17<19:32,  5.45s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 87%|████████▋ | 1460/1674 [3:35:22<19:35,  5.50s/it]
 87%|████████▋ | 1461/1674 [3:35:24<15:49,  4.46s/it]DERIVED_FILES
Leu-6.mzML
FILES
DERIVED_FILES
Lys-1.mzML
FILES
DERIVED_FILES
Lys-2.mzML
FILES
DERIVED_FILES
Lys-3.mzML
FILES
DERIVED_FILES
Lys-4.mzML
FILES
DERIVED_FILES
Lys-5.mzML
FILES
DERIVED_FILES
Lys-6.mzML
FILES
DERIVED_FILES
Met-1.mzML
FILES
DERIVED_FILES
Met-2.mzML
FILES
DERIVED_FILES
Met-3.mzML
FILES
DERIVED_FILES
Met-4.mzML
FILES
DERIVED_FILES
Met-5.mzML
FILES
DERIVED_FILES
Met-6.mzML
FILES
DERIVED_FILES
NEG-1.mzML
FILES
DERIVED_FILES
NEG-2.mzML
FILES
DERIVED_FILES
NEG-3.mzML
FILES
DERIVED_FILES
NEG-4.mzML
FILES
DERIVED_FILES
NEG-5.mzML
FILES
DERIVED_FILES
NEG-6.mzML
FILES
DERIVED_FILES
POS-1.mzML
FILES
DERIVED_FILES
POS-2.mzML
FILES
DERIVED_FILES
POS-3.mzML
FILES
DERIVED_FILES
POS-4.mzML
FILES
DERIVED_FILES
POS-5.mzML
FILES
DERIVED_FILES
POS-6.mzML
FILES
DERIVED_FILES
Phe-1.mzML
FILES
DERIVED_FILES
Phe-2.mzML
FILES
DERIVED_FILES
Phe-3.mzML
FILES
DERIVED_FILES
Phe-4.mzML
FILES
DERIVED_FILES
Phe-5.mzML
FILES
DERIVED_FILES
Phe-6.mzML
FILES
DERIVED_FILES
QC-1.mzML
FILES
DERIVED_FILES
QC-10.mzML
FILES
DERIVED_FILES
QC-2.mzML
FILES
DERIVED_FILES
QC-3.mzML
FILES
DERIVED_FILES
QC-4.mzML
FILES
DERIVED_FILES
QC-5.mzML
FILES
DERIVED_FILES
QC-6.mzML
FILES
DERIVED_FILES
QC-7.mzML
FILES
DERIVED_FILES
QC-8.mzML
FILES
DERIVED_FILES
QC-9.mzML
FILES
DERIVED_FILES
Thr-1.mzML
FILES
DERIVED_FILES
Thr-2.mzML
FILES
DERIVED_FILES
Thr-3.mzML
FILES
DERIVED_FILES
Thr-4.mzML
FILES
DERIVED_FILES
Thr-5.mzML
FILES
DERIVED_FILES
Thr-6.mzML
FILES
DERIVED_FILES
Trp-1.mzML
FILES
DERIVED_FILES
Trp-2.mzML
FILES
DERIVED_FILES
Trp-3.mzML
FILES
DERIVED_FILES
Trp-4.mzML
FILES
DERIVED_FILES
Trp-5.mzML
FILES
DERIVED_FILES
Trp-6.mzML
FILES
DERIVED_FILES
Val-1.mzML
FILES
DERIVED_FILES
Val-2.mzML
FILES
DERIVED_FILES
Val-3.mzML
FILES
DERIVED_FILES
Val-4.mzML
FILES
DERIVED_FILES
Val-5.mzML
FILES
DERIVED_FILES
Val-6.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Amino acid supplementation
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 82 rows!
Added 82 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3973
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6210 TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
P1_neg.d
FILES
RAW_FILES
NEG
P2_neg.d
FILES
RAW_FILES
NEG
P3_neg.d
FILES
RAW_FILES
NEG
P4_neg.d
FILES
RAW_FILES
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PH1_neg.d
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RAW_FILES
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PH2_neg.d
FILES
RAW_FILES
NEG
PH3_neg.d
FILES
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PH4_neg.d
FILES
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PS1_neg.d
FILES
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PS2_neg.d
FILES
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PS3_neg.d
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PS4_neg.d
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PT2_neg.d
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PT3_neg.d
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PT4_neg.d
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PT4_pos.d
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_CE Instrument
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Replicate
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Stromal co-culture
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3977
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS3997
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 87%|████████▋ | 1462/1674 [3:35:30<17:05,  4.84s/it]LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4012
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Assay_Metabolite Assignment File/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 87%|████████▋ | 1463/1674 [3:35:36<18:09,  5.16s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 87%|████████▋ | 1464/1674 [3:35:43<20:04,  5.74s/it]
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
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Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4013
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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Samples-WT_3.mzML
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Samples-WT_4.mzML
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Samples-WT_5.mzML
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Samples-WT_6.mzML
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DERIVED_FILES
Samples-WT_7.mzML
FILES
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Samples-WT_8.mzML
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DERIVED_FILES
Samples-WT_9.mzML
IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 56 rows!
Added 56 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4015
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
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ENVOEnvironmentMaterial:
  nan: missing value
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P1806130541_CSHC18_NEG.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism
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IGNORED:  keep
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IGNORED:  filename_lower
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IGNORED:  base
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 116 rows!
Added 116 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4017
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS403
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS404
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Discovery: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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HU_neg_043.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Sampling
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Samples_Role
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Injection order
IGNORED:  Samples_Osmolality
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Subset
IGNORED:  Samples_Unit.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Batch
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_BMI
IGNORED:  Samples_Material type
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 234 rows!
Added 234 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4040
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600+: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
Neg
DIA10.raw
FILES
RAW_FILES
Neg
DIA12.raw
FILES
RAW_FILES
Neg
DIA16.raw
FILES
RAW_FILES
Neg
DIA19.raw
FILES
RAW_FILES
Neg
DIA27.raw
FILES
RAW_FILES
Neg
DIA3.raw
FILES
RAW_FILES
Neg
DIA31.raw
FILES
RAW_FILES
Neg
DIA46.raw
FILES
RAW_FILES
Neg
DIA47.raw
FILES
RAW_FILES
Neg
DIA54.raw
FILES
RAW_FILES
Neg
DIA56.raw
FILES
RAW_FILES
Neg
DIA8.raw
FILES
RAW_FILES
Neg
NOR23.raw
FILES
RAW_FILES
Neg
NOR24.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 88%|████████▊ | 1469/1674 [3:36:13<20:20,  5.96s/it]
FILES
RAW_FILES
Neg
NOR32.raw
FILES
RAW_FILES
Neg
NOR34.raw
FILES
RAW_FILES
Neg
NOR36.raw
FILES
RAW_FILES
Neg
NOR37.raw
FILES
RAW_FILES
Neg
NOR39.raw
FILES
RAW_FILES
Neg
NOR45.raw
FILES
RAW_FILES
Neg
NOR5.raw
FILES
RAW_FILES
Neg
NOR55.raw
FILES
RAW_FILES
Neg
NOR58.raw
FILES
RAW_FILES
Neg
NOR9.raw
FILES
RAW_FILES
Neg
QC1.raw
FILES
RAW_FILES
Neg
QC2.raw
FILES
RAW_FILES
Neg
QC3.raw
FILES
RAW_FILES
Neg
QC4.raw
FILES
RAW_FILES
Neg
QC5.raw
FILES
RAW_FILES
Neg
QC6.raw
FILES
RAW_FILES
Neg
QC7.raw
FILES
RAW_FILES
Pos
DIA10.raw
FILES
RAW_FILES
Pos
DIA12.raw
FILES
RAW_FILES
Pos
DIA16.raw
FILES
RAW_FILES
Pos
DIA19.raw
FILES
RAW_FILES
Pos
DIA27.raw
FILES
RAW_FILES
Pos
DIA3.raw
FILES
RAW_FILES
Pos
DIA31.raw
FILES
RAW_FILES
Pos
DIA46.raw
FILES
RAW_FILES
Pos
DIA47.raw
FILES
RAW_FILES
Pos
DIA54.raw
FILES
RAW_FILES
Pos
DIA56.raw
FILES
RAW_FILES
Pos
DIA8.raw
FILES
RAW_FILES
Pos
NOR23.raw
FILES
RAW_FILES
Pos
NOR24.raw
FILES
RAW_FILES
Pos
NOR32.raw
FILES
RAW_FILES
Pos
NOR34.raw
FILES
RAW_FILES
Pos
NOR36.raw
FILES
RAW_FILES
Pos
NOR37.raw
FILES
RAW_FILES
Pos
NOR39.raw
FILES
RAW_FILES
Pos
NOR45.raw
FILES
RAW_FILES
Pos
NOR5.raw
FILES
RAW_FILES
Pos
NOR55.raw
FILES
RAW_FILES
Pos
NOR58.raw
FILES
RAW_FILES
Pos
NOR9.raw
FILES
RAW_FILES
Pos
QC1.raw
FILES
RAW_FILES
Pos
QC2.raw
FILES
RAW_FILES
Pos
QC3.raw
FILES
RAW_FILES
Pos
QC4.raw
FILES
RAW_FILES
Pos
QC5.raw
FILES
RAW_FILES
Pos
QC6.raw
FILES
RAW_FILES
Pos
QC7.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 62 rows!
Added 62 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4046
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NEG
AMADR1_4_0004_neg.mzXML
FILES
DERIVED_FILES
NEG
AMADR2_4_0010_neg.mzXML
FILES
DERIVED_FILES
NEG
AMADR3_4_0016_neg.mzXML
FILES
DERIVED_FILES
NEG
AMADR4_4_0022_neg.mzXML
FILES
DERIVED_FILES
NEG
AMAER1_5_0005_neg.mzXML
FILES
DERIVED_FILES
NEG
AMAER2_5_0011_neg.mzXML
FILES
DERIVED_FILES
NEG
AMAER3_5_0017_neg.mzXML
FILES
DERIVED_FILES
NEG
AMAER4_5_0023_neg.mzXML
FILES
DERIVED_FILES
NEG
AMAFR1_6_0006_neg.mzXML
FILES
DERIVED_FILES
NEG
AMAFR2_6_0012_neg.mzXML
FILES
DERIVED_FILES
NEG
AMAFR3_6_0018_neg.mzXML
FILES
DERIVED_FILES
NEG
AMAFR4_6_0024_neg.mzXML
FILES
DERIVED_FILES
NEG
PROAR1_1_0001_neg.mzXML
FILES
DERIVED_FILES
NEG
PROAR2_1_0007_neg.mzXML
FILES
DERIVED_FILES
NEG
PROAR3_1_0013_neg.mzXML
FILES
DERIVED_FILES
NEG
PROAR4_1_0019_neg.mzXML
FILES
DERIVED_FILES
NEG
PROBR1_2_0002_neg.mzXML
FILES
DERIVED_FILES
NEG
PROBR2_2_0008_neg.mzXML
FILES
DERIVED_FILES
NEG
PROBR3_2_0014_neg.mzXML
FILES
DERIVED_FILES
NEG
PROBR4_2_0020_neg.mzXML
FILES
DERIVED_FILES
NEG
PROCR1_3_0003_neg.mzXML
FILES
DERIVED_FILES
NEG
PROCR2_3_0009_neg.mzXML
FILES
DERIVED_FILES
NEG
PROCR3_3_0015_neg.mzXML
FILES
DERIVED_FILES
NEG
PROCR4_3_0021_neg.mzXML
FILES
DERIVED_FILES
NEG
matrix_blank_1_neg.mzXML
FILES
DERIVED_FILES
NEG
matrix_blank_2_neg.mzXML
FILES
DERIVED_FILES
NEG
matrix_blank_3_neg.mzXML
FILES
DERIVED_FILES
NEG
matrix_blank_4_neg.mzXML
FILES
DERIVED_FILES
NEG
matrix_blank_5_neg.mzXML
FILES
DERIVED_FILES
NEG
matrix_blank_6_neg.mzXML
FILES
DERIVED_FILES
NEG
pooled_10_neg.mzXML
FILES
DERIVED_FILES
NEG
pooled_11_neg.mzXML
FILES
DERIVED_FILES
NEG
pooled_12_neg.mzXML
FILES
DERIVED_FILES
NEG
pooled_13_neg.mzXML
FILES
DERIVED_FILES
NEG
pooled_14_neg.mzXML
FILES
DERIVED_FILES
NEG
pooled_15_neg.mzXML
FILES
DERIVED_FILES
NEG
pooled_7_neg.mzXML
FILES
DERIVED_FILES
NEG
pooled_8_neg.mzXML
FILES
DERIVED_FILES
NEG
pooled_9_neg.mzXML
FILES
DERIVED_FILES
POS
AMADR1_4_0004_pos.mzXML
FILES
DERIVED_FILES
POS
AMADR2_4_0010_pos.mzXML
FILES
DERIVED_FILES
POS
AMADR3_4_0016_pos.mzXML
FILES
DERIVED_FILES
POS
AMADR4_4_0022_pos.mzXML
FILES
DERIVED_FILES
POS
AMAER1_5_0005_pos.mzXML
FILES
DERIVED_FILES
POS
AMAER2_5_0011_pos.mzXML
FILES
DERIVED_FILES
POS
AMAER3_5_0017_pos.mzXML
FILES
DERIVED_FILES
POS
AMAER4_5_0023_pos.mzXML
FILES
DERIVED_FILES
POS
AMAFR1_6_0006_pos.mzXML
FILES
DERIVED_FILES
POS
AMAFR2_6_0012_pos.mzXML
FILES
DERIVED_FILES
POS
AMAFR3_6_0018_pos.mzXML
FILES
DERIVED_FILES
POS
AMAFR4_6_0024_pos.mzXML
FILES
DERIVED_FILES
POS
PROAR1_1_0001_pos.mzXML
FILES
DERIVED_FILES
POS
PROAR2_1_0007_pos.mzXML
FILES
DERIVED_FILES
POS
PROAR3_1_0013_pos.mzXML
FILES
DERIVED_FILES
POS
PROAR4_1_0019_pos.mzXML
FILES
DERIVED_FILES
POS
PROBR1_2_0002_pos.mzXML
FILES
DERIVED_FILES
POS
PROBR2_2_0008_pos.mzXML
FILES
DERIVED_FILES
POS
PROBR3_2_0014_pos.mzXML
FILES
DERIVED_FILES
POS
PROBR4_2_0020_pos.mzXML
FILES
DERIVED_FILES
POS
PROCR1_3_0003_pos.mzXML
FILES
DERIVED_FILES
POS
PROCR2_3_0009_pos.mzXML
FILES
DERIVED_FILES
POS
PROCR3_3_0015_pos.mzXML
FILES
DERIVED_FILES
POS
PROCR4_3_0021_pos.mzXML
FILES
DERIVED_FILES
POS
matrix_blank_1_pos.mzXML
FILES
DERIVED_FILES
POS
matrix_blank_2_pos.mzXML
FILES
DERIVED_FILES
POS
matrix_blank_3_pos.mzXML
FILES
DERIVED_FILES
POS
matrix_blank_4_pos.mzXML
FILES
DERIVED_FILES
POS
matrix_blank_5_pos.mzXML
FILES
DERIVED_FILES
POS
matrix_blank_6_pos.mzXML
FILES
DERIVED_FILES
POS
pooled_10_pos.mzXML
FILES
DERIVED_FILES
POS
pooled_11_pos.mzXML
FILES
DERIVED_FILES
POS
pooled_12_pos.mzXML
FILES
DERIVED_FILES
POS
pooled_13_pos.mzXML
FILES
DERIVED_FILES
POS
pooled_14_pos.mzXML
FILES
DERIVED_FILES
POS
pooled_15_pos.mzXML
FILES
DERIVED_FILES
POS
pooled_7_pos.mzXML
FILES
DERIVED_FILES
POS
pooled_8_pos.mzXML
FILES
DERIVED_FILES
POS
pooled_9_pos.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 88%|████████▊ | 1470/1674 [3:36:25<26:25,  7.77s/it]
 88%|████████▊ | 1471/1674 [3:36:30<24:11,  7.15s/it]
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Stage
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_Biological Replicate
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 78 rows!
Added 78 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4065
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4066
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  LECO Pegasus III: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
16020ob_1.cdf
FILES
RAW_FILES
16020ob_10.cdf
FILES
RAW_FILES
16020ob_11.cdf
FILES
RAW_FILES
16020ob_12.cdf
FILES
RAW_FILES
16020ob_13.cdf
FILES
RAW_FILES
16020ob_14.cdf
FILES
RAW_FILES
16020ob_15.cdf
FILES
RAW_FILES
16020ob_16.cdf
FILES
RAW_FILES
16020ob_17.cdf
FILES
RAW_FILES
16020ob_18.cdf
FILES
RAW_FILES
16020ob_19.cdf
FILES
RAW_FILES
16020ob_2.cdf
FILES
RAW_FILES
16020ob_20.cdf
FILES
RAW_FILES
16020ob_21.cdf
FILES
RAW_FILES
16020ob_22.cdf
FILES
RAW_FILES
16020ob_23.cdf
FILES
RAW_FILES
16020ob_24.cdf
FILES
RAW_FILES
16020ob_25.cdf
FILES
RAW_FILES
16020ob_26.cdf
FILES
RAW_FILES
16020ob_27.cdf
FILES
RAW_FILES
16020ob_28.cdf
FILES
RAW_FILES
16020ob_29.cdf
FILES
RAW_FILES
16020ob_3.cdf
FILES
RAW_FILES
16020ob_30.cdf
FILES
RAW_FILES
16020ob_31.cdf
FILES
RAW_FILES
16020ob_32.cdf
FILES
RAW_FILES
16020ob_33.cdf
FILES
RAW_FILES
16020ob_34.cdf
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Mass analyzer/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 88%|████████▊ | 1472/1674 [3:36:40<26:48,  7.96s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 88%|████████▊ | 1473/1674 [3:36:46<24:30,  7.31s/it]
 88%|████████▊ | 1474/1674 [3:36:48<18:42,  5.61s/it]
IGNORED:  Samples_Term Accession Number.7
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Number of rows removed due to not enough metadata: 2
Returning 105 rows!
Added 105 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4099
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Country: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4108
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4128
Request successful!
SampleCollectionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Chromatography Instrument/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 88%|████████▊ | 1475/1674 [3:36:58<23:44,  7.16s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 88%|████████▊ | 1476/1674 [3:37:03<21:25,  6.49s/it]
 88%|████████▊ | 1477/1674 [3:37:06<17:26,  5.31s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 88%|████████▊ | 1478/1674 [3:37:12<18:12,  5.57s/it]
 88%|████████▊ | 1479/1674 [3:37:15<15:11,  4.68s/it]
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 90 rows!
Added 90 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4132
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
  nan: missing value
FILES
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KPPB_5388_2_1.mzXML
FILES
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KPPB_5388_2_2.mzXML
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KPPB_5388_2_3.mzXML
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KPWT_11_1.mzXML
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Returning 17 rows!
Added 17 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS415
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4176
Request successful!
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Returning 10 rows!
Added 10 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4202
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4206
Request successful!
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IGNORED:  Assay_Labeled Extract Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 88%|████████▊ | 1480/1674 [3:37:22<17:59,  5.56s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 88%|████████▊ | 1481/1674 [3:37:28<17:45,  5.52s/it]
 89%|████████▊ | 1482/1674 [3:37:29<13:47,  4.31s/it]
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 208 rows!
Added 208 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4219
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Fusion: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
CSBC090010.raw
FILES
CSBC090012.raw
FILES
CSBC090013.raw
FILES
CSBC090015.raw
FILES
CSBC090019.raw
FILES
CSBC090020.raw
FILES
CSBC090021.raw
FILES
CSBC090022.raw
FILES
CSBC090023.raw
FILES
CSBC090026.raw
FILES
CSBC090028.raw
FILES
CSBC090029.raw
FILES
CSBC090030.raw
FILES
CSBC090032.raw
FILES
CSBC090033.raw
FILES
CSBC090034.raw
FILES
CSBJ091003.raw
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CSBJ091009.raw
FILES
CSBJ091010.raw
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CSBJ091011.raw
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CSBJ091012.raw
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CSBJ091013.raw
FILES
CSBJ091014.raw
FILES
CSBJ091015.raw
FILES
CSBJ091016.raw
FILES
CSBJ091017.raw
FILES
CSBJ092002.raw
FILES
CSBJ092003.raw
FILES
CSBJ092004.raw
FILES
CSBJ092005.raw
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CSBJ092007.raw
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CSBJ092008.raw
FILES
CSBJ092011.raw
FILES
CSBJ092012.raw
FILES
CSBJ092013.raw
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CSBJ092015.raw
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CSBJ092016.raw
FILES
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FILES
CSBJ092018.raw
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CSBJ092019.raw
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CSBJ092020.raw
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CSBJ092025.raw
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CSBJ092026.raw
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CSBJ092027.raw
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CSBJ092028.raw
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CSBJ093004.raw
FILES
CSBJ093005.raw
FILES
CSBJ093006.raw
FILES
CSBJ093007.raw
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CSBJ093009.raw
FILES
CSBJ093010.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Retinopathy of Prematurity
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 51 rows!
Added 51 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4223
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4262
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
HC1-negtive.raw
FILES
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HC2-negtive.raw
FILES
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FILES
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HC4-negtive.raw
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HC7-negtive.raw
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HCL1-negtive.raw
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NC9-negtive.raw
FILES
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POS
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HC3-positive.raw
FILES
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HC4-positive.raw
FILES
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HC6-positive.raw
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HC7-positive.raw
FILES
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FILES
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FILES
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POS
HCL3-positive.raw
FILES
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FILES
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POS
HCL5-positive.raw
FILES
RAW_FILES
POS
HCL7-positive.raw
FILES
RAW_FILES
POS
NC1-positive.raw
FILES
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NC2-positive.raw
FILES
RAW_FILES
POS
NC3-positive.raw
FILES
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POS
NC4-positive.raw
FILES
RAW_FILES
POS
NC5-positive.raw
FILES
RAW_FILES
POS
NC9-positive.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▊ | 1483/1674 [3:37:35<14:54,  4.68s/it]
 89%|████████▊ | 1484/1674 [3:37:39<14:24,  4.55s/it]
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Diet
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 38 rows!
Added 38 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4276
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4294
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
C18_neg
01_onset_NB_Plasma_Quant_C18_Neg_069.raw
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02_onset_NB_Plasma_Quant_C18_Neg_067.raw
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03_onset_NB_Plasma_Quant_C18_Neg_068.raw
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IGNORED:  Assay_Autosampler model/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▊ | 1485/1674 [3:37:57<26:38,  8.46s/it]
 89%|████████▉ | 1486/1674 [3:37:58<19:57,  6.37s/it]
 89%|████████▉ | 1487/1674 [3:38:00<15:39,  5.03s/it]
IGNORED:  Assay_MS Assay Name
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 561 rows!
Added 561 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4307
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4365
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4384
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  extension
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IGNORED:  Assay_Derivatization/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▉ | 1488/1674 [3:38:17<26:34,  8.57s/it]
 89%|████████▉ | 1489/1674 [3:38:19<20:48,  6.75s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▉ | 1490/1674 [3:38:25<19:57,  6.51s/it]
IGNORED:  Assay_Term Source REF
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Number of rows removed due to not enough metadata: 0
Returning 411 rows!
Added 411 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4387
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4392
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
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  Thermo Scientific Q Exactive HF-X: missing value
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Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4404
Request successful!
SampleCollectionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.2
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▉ | 1491/1674 [3:38:31<19:25,  6.37s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▉ | 1492/1674 [3:38:39<20:52,  6.88s/it]
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4445
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Finnigan TRACE DSQ: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
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UBERONBodyPartName:
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ENVOEnvironmentBiome:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Samples_Combination
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Lifespan
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 62 rows!
Added 62 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4469
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus HT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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C2_1.cdf
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P6_1.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Samples_Diet
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_AAP treatment
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▉ | 1493/1674 [3:38:44<18:38,  6.18s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▉ | 1494/1674 [3:38:49<17:47,  5.93s/it]
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4495
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
AHK001_CU004.raw
FILES
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AHK001_CU005.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Stimulation
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_DCATH treatment
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Rapamycin treatment
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4497
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  LECO Pegasus 4D: missing value
  Thermo Scientific Orbitrap Elite: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
GCMS
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FILES
RAW_FILES
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42DMEM_2h_SL.cdf
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RAW_FILES
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43DMEM_2h_SL.cdf
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46KIV_2h_SL.cdf
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47KIV_2h_SL.cdf
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48KIV_2h_SL.cdf
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52KMV_2h_SL.cdf
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62KIV_24h_SL.cdf
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63KIV_24h_SL.cdf
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IGNORED:  Samples_Term Source REF.8
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▉ | 1495/1674 [3:38:58<19:44,  6.62s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 89%|████████▉ | 1496/1674 [3:39:06<20:55,  7.05s/it]
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 5
Returning 46 rows!
Added 46 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4507
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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IGNORED:  Assay_Protocol REF.3
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Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4564
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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IonizationSourceAndPolarity:
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FILES
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47259_1_HILIC.raw
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47579_2.raw
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IQC_1_HILIC.raw
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IQC_3_HILIC.raw
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QC_Tobacco_1.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Is Multicellular
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IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  base
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IGNORED:  Samples_Term Source REF.5
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IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
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IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 7
Returning 120 rows!
Added 120 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4590
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Focus: missing value
UBERONBodyPartName:
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FILES
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
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Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 73 rows!
Added 73 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4591
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4609
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4708
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 5600+: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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Galli_L0605_c.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Protocol REF.3
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Number of rows removed due to not enough metadata: 0
Returning 171 rows!
Added 171 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4709
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters Xevo G2-XS QTof: missing value
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FILES
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P_Lipids_LY037_B1_010_shSTAT3_P_1.raw
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P_Lipids_LY037_B1_011_shSTAT3_P_3.raw
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P_Lipids_LY037_B1_021_shSTAT3_M_2.raw
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P_Lipids_LY037_B1_022_shSTAT3_M_1.raw
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IGNORED:  Assay_Autosampler model/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 90%|████████▉ | 1502/1674 [3:39:41<15:56,  5.56s/it]
IGNORED:  Assay_MS Assay Name
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Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4816
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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qiita_sample_name: ADDED!
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 90%|████████▉ | 1503/1674 [3:39:50<18:50,  6.61s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 90%|████████▉ | 1504/1674 [3:39:54<16:37,  5.87s/it]
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 208 rows!
Added 208 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS483
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Waters SYNAPT G2-Si HDMS: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
070120_CM_neg_15min_SIN_I.mzML
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070120_CM_neg_15min_SIN_II.mzML
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
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IGNORED:  Samples_Organism
IGNORED:  Is Fluid
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IGNORED:  base
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IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 15 rows!
Added 15 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4861
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 783 rows!
Added 783 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS496
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4967
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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CSD08_neg.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 114 rows!
Added 114 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS4994
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5028
Request successful!
SampleCollectionMethod: ADDED!
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Blank_pos_08.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 104 rows!
Added 104 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5085
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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20211013_15_SpneumoniaeTIGR4_dcfu_BA_pos.RAW/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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Number of rows removed due to not enough metadata: 4
Returning 1172 rows!
Added 1172 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5155
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5178
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 90%|█████████ | 1512/1674 [3:41:11<23:22,  8.66s/it]
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific Q Exactive HF: missing value
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ENVOEnvironmentMaterial:
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Number of rows removed due to not enough metadata: 0
Returning 82 rows!
Added 82 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5196
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6546 LC/Q-TOF: missing value
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  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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P0001_S10neg.mzXML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Term Source REF.3
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IGNORED:  extension
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IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 90%|█████████ | 1513/1674 [3:41:15<19:53,  7.41s/it]
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5197
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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Inj_002.raw
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 90%|█████████ | 1514/1674 [3:41:27<22:43,  8.52s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 91%|█████████ | 1515/1674 [3:41:32<20:30,  7.74s/it]
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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Number of rows removed due to not enough metadata: 0
Returning 355 rows!
Added 355 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5204
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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Number of rows removed due to not enough metadata: 0
Returning 39 rows!
Added 39 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5219
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Exactive Plus: missing value
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 25 rows!
Added 25 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5261
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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tissues/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 6
Returning 510 rows!
Added 510 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5272
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5297
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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RAF139pos.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 304 rows!
Added 304 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS535
Request successful!
SampleCollectionMethod: ADDED!
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Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5381
Request successful!
SampleCollectionMethod: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Response to drug
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  filepath
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 353 rows!
Added 353 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5401
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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UBERONBodyPartName:
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ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
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FILES
RAW_FILES
20220526_Blank_YUN_02.raw
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RAW_FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Is Descendant
IGNORED:  Samples_Fraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Scan m/z range
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5405
 91%|█████████ | 1523/1674 [3:42:32<14:22,  5.71s/it]
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5462
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 1
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Method 2
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Method 2
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Method 2
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Method 2
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FILES
Method 2
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Method 2
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Method 2
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Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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Method 2
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Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 2
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
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Method 3
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FILES
Method 3
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FILES
Method 3
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FILES
Method 3
QXA01PDNEG20180507_UCOR0117VWCYANOBACTERIA_BACTERIA_CELLS1_31.mzML
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Cohort
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
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IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
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IGNORED:  base
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IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Samples_Treatment
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IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
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IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 216 rows!
Added 216 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5463
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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Pre1PM1__pos_3403.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Study day
IGNORED:  Samples_Timepoint
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Mission category
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 2668 rows!
Added 2668 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5543
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Accession Number.14
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IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
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IGNORED:  Assay_Term Source REF.16
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IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Assay_Term Accession Number.12
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IGNORED:  Assay_Term Source REF.11
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IGNORED:  Is Fluid
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IGNORED:  Samples_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 91%|█████████ | 1526/1674 [3:44:03<53:39, 21.75s/it]
IGNORED:  base
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IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Statistical Comparisons
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 428 rows!
Added 428 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5583
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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P1806130645_CSHC18_POS.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 120 rows!
Added 120 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5585
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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TermsofPosition: ADDED!
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Country: ADDED!
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LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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Number of rows removed due to not enough metadata: 12
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS564
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5665
Request successful!
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SampleExtractionMethod: ADDED!
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DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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POS
QC_BEHC18_POS_MSMS2.raw
FILES
RAW_FILES
POS
QC_BEHC18_POS_MSMS3.raw
FILES
RAW_FILES
POS
QC_BEHC18_POS_MSMS4.raw
FILES
RAW_FILES
POS
QC_BEHC18_POS_MSMS5.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 91%|█████████▏| 1530/1674 [3:44:24<22:50,  9.52s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 91%|█████████▏| 1531/1674 [3:44:31<20:49,  8.74s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1532/1674 [3:44:36<18:06,  7.65s/it]
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 164 rows!
Added 164 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5667
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Blank1.mzXML
FILES
Blank2.mzXML
FILES
NC1.mzXML
FILES
NC2.mzXML
FILES
NC3.mzXML
FILES
NC4.mzXML
FILES
NC5.mzXML
FILES
NC6.mzXML
FILES
OA1.mzXML
FILES
OA2.mzXML
FILES
OA3.mzXML
FILES
OA4.mzXML
FILES
OA5.mzXML
FILES
OA6.mzXML
FILES
QC01.mzXML
FILES
QC02.mzXML
FILES
QC03.mzXML
FILES
YH1.mzXML
FILES
YH2.mzXML
FILES
YH3.mzXML
FILES
YH4.mzXML
FILES
YH5.mzXML
FILES
YH6.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Cohort
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 23 rows!
Added 23 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5772
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
Blank001.mzML
FILES
DERIVED_FILES
Tt01-1.mzML
FILES
DERIVED_FILES
Tt01-2.mzML
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DERIVED_FILES
Tt02.mzML
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Tt03-1.mzML
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Tt03-2.mzML
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Tt04.mzML
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Tt08.mzML
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Tt09-2.mzML
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DERIVED_FILES
Tt10-1.mzML
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Tt10-2.mzML
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Tt12.mzML
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Tt13.mzML
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Tt15.mzML
FILES
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Tt16-1.mzML
FILES
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Tt16-2.mzML
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Tt17.mzML
FILES
DERIVED_FILES
Tt18.mzML
FILES
DERIVED_FILES
Tt19.mzML
FILES
DERIVED_FILES
Tt20.mzML
FILES
DERIVED_FILES
Tt21-1.mzML
FILES
DERIVED_FILES
Tt21-2.mzML
FILES
DERIVED_FILES
Tt22.mzML
FILES
DERIVED_FILES
Tt23.mzML
FILES
DERIVED_FILES
Tt25.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Body length
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Tissue location
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 29 rows!
Added 29 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5785
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
Raw Data LC HRMS Citrus sinensis.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1533/1674 [3:44:39<15:06,  6.43s/it]
 92%|█████████▏| 1534/1674 [3:44:41<11:34,  4.96s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1535/1674 [3:44:46<11:52,  5.13s/it]
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5803
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5808
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
new_mzml_files
shACSL1-1_N.mzML
FILES
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shACSL1-1_P.mzML
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shACSL1-3_P.mzML
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FILES
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FILES
DERIVED_FILES
new_mzml_files
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FILES
DERIVED_FILES
new_mzml_files
shNC-5_N.mzML
FILES
DERIVED_FILES
new_mzml_files
shNC-5_P.mzML
FILES
DERIVED_FILES
new_mzml_files
shNC-6_N.mzML
FILES
DERIVED_FILES
new_mzml_files
shNC-6_P.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Assay_Derived Spectral Data File.1
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5828
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Cohort
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 156 rows!
Added 156 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5841
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Exactive: missing value/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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  Waters SYNAPT G2-S: missing value
IonizationSourceAndPolarity:
  atmospheric pressure chemical ionization (alternating): missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Unit.5
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Scan type
IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Low-res image
IGNORED:  Assay_Matrix application
IGNORED:  keep
IGNORED:  Assay_Line scan direction
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Assay_Max count of pixel x
IGNORED:  Assay_Scan pattern
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Sample preservation
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Instrument software version
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Section thickness
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Matrix
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Pixel size y
IGNORED:  Assay_Solvent
IGNORED:  Assay_Spectrum representation
IGNORED:  filename_lower
IGNORED:  Assay_DI Instrument
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Spatial resolution
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 24
Returning 37 rows!
Added 37 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5861
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Shimadzu LCMS-9030: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID1.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID10.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID11.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID12.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID13.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID14.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID15.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID16.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID17.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID18.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID2.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID3.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID4.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID5.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID6.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID7.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID8.mzML
FILES
DERIVED_FILES
HEK cell
CID-Neg
HEK_NegCID9.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID1.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID10.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID11.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID12.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID13.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID14.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID15.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID16.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID17.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID18.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID2.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID3.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID4.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID5.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID6.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID7.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID8.mzML
FILES
DERIVED_FILES
HEK cell
CID-Pos
HEK_PosCID9.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD1.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD10.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD11.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD12.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD13.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD14.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD15.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD16.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD17.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD18.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD2.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD3.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD4.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD5.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD6.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD7.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD8.mzML
FILES
DERIVED_FILES
HEK cell
OAD-Pos
HEK_PosOAD9.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C1_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C1_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C1_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C1_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C1_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C2_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C2_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C2_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C2_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C2_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C3_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C3_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C3_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C3_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C3_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C4_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C4_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C4_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C4_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C4_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C5_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C5_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C5_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C5_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C5_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C6_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C6_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C6_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C6_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C6_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C7_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C7_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C7_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C7_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C7_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C8_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C8_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C8_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C8_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C8_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C9_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C9_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C9_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C9_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
C9_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_100n_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_100n_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_100n_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_100n_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_100n_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10n_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10n_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10n_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10n_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10n_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10u_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10u_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10u_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10u_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_10u_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_1u_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_1u_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_1u_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_1u_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_1u_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_30u_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_30u_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_30u_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_30u_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_30u_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_500n_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_500n_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_500n_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_500n_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_500n_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_50n_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_50n_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_50n_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_50n_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_50n_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_5u_run1.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_5u_run2.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_5u_run3.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_5u_run4.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixA_5u_run5.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_100n_run1_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_100n_run2_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_100n_run3_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_100n_run4_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_100n_run5_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10n_run1_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10n_run2_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10n_run3_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10n_run4_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10n_run5_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10u_run1_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10u_run2_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10u_run3_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10u_run4_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_10u_run5_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_1u_run1_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_1u_run2_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_1u_run3_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_1u_run4_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_1u_run5_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_30u_run1_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_30u_run2_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_30u_run3_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_30u_run4_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_30u_run5_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_500n_run1_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_500n_run2_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_500n_run3_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_500n_run4_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_500n_run5_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_50n_run1_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_50n_run2_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_50n_run3_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_50n_run4_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_50n_run5_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_5u_run1_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_5u_run2_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_5u_run3_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_5u_run4_1214.mzML
FILES
DERIVED_FILES
Standard
OAD-Pos
STDMixB_5u_run5_1214.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
BrainBlank_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Eye1_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Eye2_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Eye3_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
EyeBlank_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Feces1_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Feces2_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Feces3_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
FecesBlank_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Human1_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Human2_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Human3_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
HumanBlank_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Liver1_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Liver2_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Liver3_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
LiverBlank_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Skin1_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Skin2_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Skin3_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
SkinBlank_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Testis1_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Testis2_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
Testis3_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Neg
TestisBlank_NegCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Pos
BrainBlank_PosCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Pos
Eye1_PosCID.mzML
FILES
DERIVED_FILES
mouse Tissue
CID-Pos
Eye2_PosCID.mzML
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mouse Tissue
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mouse Tissue
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mouse Tissue
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mouse Tissue
OAD-Pos
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Sample dilution
IGNORED:  Assay_Column model
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 92%|█████████▏| 1538/1674 [3:46:19<41:56, 18.50s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1539/1674 [3:46:23<31:52, 14.17s/it]
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 127
Returning 130 rows!
Added 130 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS5971
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific Q Exactive Focus: missing value
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ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6038
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
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FILES
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P210705283.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1540/1674 [3:46:31<26:55, 12.06s/it]
FILES
DERIVED_FILES
P210705284.mzML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Protocol REF.3
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
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IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 179 rows!
Added 179 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6039
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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neg_L59.raw
FILES
RAW_FILES
NEG/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1541/1674 [3:46:37<23:01, 10.39s/it]
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 160 rows!
Added 160 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS607
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_JF45.raw
FILES
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200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_JF45_2.raw
FILES
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200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_JF46_2.raw
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200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_JF49.raw
FILES
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FILES
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FILES
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200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_JF52.raw
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200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_JF52_2.raw
FILES
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FILES
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FILES
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200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_JF60_2.raw
FILES
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LC-MS_negative
200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_JF69.raw
FILES
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LC-MS_negative
200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_JF69_2.raw
FILES
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LC-MS_negative
200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_MeOH.raw
FILES
RAW_FILES
LC-MS_negative
200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_MeOH_20200306052111.raw
FILES
RAW_FILES
LC-MS_negative
200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_MeOH_20200306104348.raw
FILES
RAW_FILES
LC-MS_negative
200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_NegIonStds1.raw
FILES
RAW_FILES
LC-MS_negative
200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_NegIonStds1_2.raw
FILES
RAW_FILES
LC-MS_negative
200305_MWC_Latour_Gobert_Stomach_NegHESI_ZicHILIC_NegIonStds1_3.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF45.raw
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1542/1674 [3:46:46<21:42,  9.87s/it]
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF45_2.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF46.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF46_2.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF49.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF49_2.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF50.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF50_2.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF52.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF52_2.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF53.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF53_2.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF60.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF60_2.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF69.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_JF69_2.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_MeOH.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_MeOH_20200305112538.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_MeOH_20200305164823.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_MeOH_20200305221104.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_PosIonStds1.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_PosIonStds1_2.raw
FILES
RAW_FILES
LC-MS_positive
200305_MWC_Latour_Gobert_Stomach_PosHESI_ZicHILIC_PosIonStds1_3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_H Pylori infected
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 13
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6081
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Waters Xevo G2-XS QTof: missing value
UBERONBodyPartName:
  : missing value
FILES
XS1_2017_05_08_LS_001.mzML
FILES
XS1_2017_05_08_LS_002.mzML
FILES
XS1_2017_05_08_LS_003.mzML
FILES
XS1_2017_05_08_LS_004.mzML
FILES
XS1_2017_05_08_LS_005.mzML
FILES
XS1_2017_05_08_LS_006.mzML
FILES
XS1_2017_07_28_LS_004.mzML
FILES
XS1_2017_07_28_LS_010.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Well site
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_Term Source REF.11
IGNORED:  Samples_Unit.5
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Cell count
IGNORED:  Samples_Term Source REF.10
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_pH
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Temperature
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Samples_Term Source REF.12
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Accession Number.12
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Conductivity
IGNORED:  Samples_Unit.2
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Unit.1
IGNORED:  Samples_SPE volume
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Term Accession Number.13
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Term Accession Number.11
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Pump depth
IGNORED:  Samples_Sample TOC
IGNORED:  keep
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_TOC
IGNORED:  Samples_Term Source REF.13
IGNORED:  Samples_Term Accession Number.14
IGNORED:  Samples_Unit.3
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.10
IGNORED:  Samples_ORP
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Unit.4
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Term Source REF.14
IGNORED:  Samples_Lithology
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Samples_Unit.7
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Samples_Fluid type
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_Term Accession Number.15
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Unit.6
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1543/1674 [3:46:51<18:42,  8.57s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1544/1674 [3:46:56<16:20,  7.55s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1545/1674 [3:47:01<14:30,  6.75s/it]
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Term Source REF.15
Number of rows removed due to not enough metadata: 0
Returning 8 rows!
Added 8 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6082
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Blank_01.mzML
FILES
Blank_02.mzML
FILES
Blank_03.mzML
FILES
D1_A_01.mzML
FILES
D1_A_02.mzML
FILES
D1_B_01.mzML
FILES
D1_B_02.mzML
FILES
D1_C_01.mzML
FILES
D1_C_02.mzML
FILES
D3_A_01.mzML
FILES
D3_B_01.mzML
FILES
D3_C_01.mzML
FILES
D7_A_01.mzML
FILES
D7_A_02.mzML
FILES
D7_B_01.mzML
FILES
D7_B_02.mzML
FILES
D7_C_01.mzML
FILES
D7_C_02.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Assay_DI Instrument
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Sample Type
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Differentiation State
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6083
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QExHF_NM_MSC_Blank1_00541.mzML
FILES
QExHF_NM_MSC_Blank2_IS_00550.mzML
FILES
QExHF_NM_MSC_Blank3_00579.mzML
FILES
QExHF_NM_MSC_Blank4_IS_00583.mzML
FILES
QExHF_NM_MSC_Blank5_00600.mzML
FILES
QExHF_NM_MSC_Blank6_IS_00545.mzML
FILES
QExHF_NM_MSC_D0_control_00577.mzML
FILES
QExHF_NM_MSC_D0_control_00596.mzML
FILES
QExHF_NM_MSC_D0_control_00606.mzML
FILES
QExHF_NM_MSC_D7_FSG_00633.mzML
FILES
QExHF_NM_MSC_D7_FSG_00636.mzML
FILES
QExHF_NM_MSC_D7_FSG_00658.mzML
FILES
QExHF_NM_MSC_D7_TriaC_00639.mzML
FILES
QExHF_NM_MSC_D7_TriaC_00651.mzML
FILES
QExHF_NM_MSC_D7_TriaC_00652.mzML
FILES
QExHF_NM_MSC_D7_control_00573.mzML
FILES
QExHF_NM_MSC_D7_control_00574.mzML
FILES
QExHF_NM_MSC_D7_control_00595.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Unit
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Assay_DI Instrument
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Differentiation State
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Samples_Term Source REF.2
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 18 rows!
Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6084
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  AB SCIEX QTRAP 6500+: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
SL_ST_Blank1.mzML
FILES
SL_ST_Blank2.mzML
FILES
SL_ST_Blank_IS.mzML
FILES
SL_ST_D1_A-MKII_d1A.mzML
FILES
SL_ST_D1_B-MKII_D1_B.mzML
FILES
SL_ST_D1_C-MKII_D1_C.mzML
FILES
SL_ST_D3_A-MKII_d3A.mzML
FILES
SL_ST_D3_B-MKII_D3_B.mzML
FILES
SL_ST_D3_C-MKII_D3_C.mzML
FILES
SL_ST_D7_A-MKII_d7A.mzML
FILES
SL_ST_D7_B-MKII_D7_B.mzML
FILES
SL_ST_D7_C-MKII_D7_C.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1546/1674 [3:47:06<12:57,  6.08s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1547/1674 [3:47:10<11:50,  5.60s/it]
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Differentiation State
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS61
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap Discovery: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
293(ARL-AMPCP)-24-1.RAW
FILES
293(ARL-AMPCP)-24-2.RAW
FILES
293(ARL-AMPCP)-24-3.RAW
FILES
293(control)-24-1.RAW
FILES
293(control)-24-2.RAW
FILES
293(control)-24-3.RAW
FILES
610(ARL-AMPCP)-24-1.RAW
FILES
610(ARL-AMPCP)-24-2.RAW
FILES
610(ARL-AMPCP)-24-3.RAW
FILES
610(control)-24-1.RAW
FILES
610(control)-24-2.RAW
FILES
610(control)-24-3.RAW
FILES
66(ARL-AMPCP)-24-1.RAW
FILES
66(ARL-AMPCP)-24-2.RAW
FILES
66(ARL-AMPCP)-24-3.RAW
FILES
66(control)-24-1.RAW
FILES
66(control)-24-2.RAW
FILES
66(control)-24-3.RAW
FILES
F_KO_1.RAW
FILES
F_KO_2.RAW
FILES
F_KO_3.RAW
FILES
F_KO_4.RAW
FILES
F_KO_5.RAW
FILES
F_KO_6.RAW
FILES
F_KO_7.RAW
FILES
F_WT_1.RAW
FILES
F_WT_2.RAW
FILES
F_WT_3.RAW
FILES
F_WT_4.RAW
FILES
F_WT_5.RAW
FILES
GFP(ARL-AMPCP)-24-1.RAW
FILES
GFP(ARL-AMPCP)-24-2.RAW
FILES
GFP(ARL-AMPCP)-24-3.RAW
FILES
GFP(control)-24-1.RAW
FILES
GFP(control)-24-2.RAW
FILES
GFP(control)-24-3.RAW
FILES
M_KO_1.RAW
FILES
M_KO_2.RAW
FILES
M_KO_3.RAW
FILES
M_KO_4.RAW
FILES
M_WT_1.RAW
FILES
M_WT_2.RAW
FILES
M_WT_3.RAW
FILES
M_WT_4.RAW
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Samples_ABCC6 genotype
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Ectonucleotidase inhibition
IGNORED:  Assay_Column model
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 44 rows!
Added 44 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6121
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NEG
CRD1_NEG.mzML
FILES
DERIVED_FILES
NEG
CRD2_NEG.mzML
FILES
DERIVED_FILES
NEG
CRD3_NEG.mzML
FILES
DERIVED_FILES
NEG
CRD4_NEG.mzML
FILES
DERIVED_FILES
NEG
CRD5_NEG.mzML
FILES
DERIVED_FILES
NEG
CRD6_NEG.mzML
FILES
DERIVED_FILES
NEG
WRD1_NEG.mzML
FILES
DERIVED_FILES
NEG
WRD2_NEG.mzML
FILES
DERIVED_FILES
NEG
WRD3_NEG.mzML
FILES
DERIVED_FILES
NEG
WRD4_NEG.mzML
FILES
DERIVED_FILES
NEG
WRD5_NEG.mzML
FILES
DERIVED_FILES
NEG
WRD6_NEG.mzML
FILES
DERIVED_FILES
POS
CRD1_POS.mzML
FILES
DERIVED_FILES
POS
CRD2_POS.mzML
FILES
DERIVED_FILES
POS
CRD3_POS.mzML
FILES
DERIVED_FILES
POS
CRD4_POS.mzML
FILES
DERIVED_FILES
POS
CRD5_POS.mzML
FILES
DERIVED_FILES
POS
CRD6_POS.mzML
FILES
DERIVED_FILES
POS
WRD1_POS.mzML
FILES
DERIVED_FILES
POS
WRD2_POS.mzML
FILES
DERIVED_FILES
POS
WRD3_POS.mzML
FILES
DERIVED_FILES
POS
WRD4_POS.mzML
FILES
DERIVED_FILES
POS
WRD5_POS.mzML
FILES
DERIVED_FILES
POS
WRD6_POS.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Group
IGNORED:  Samples_Organism
IGNORED:  Is Fluid/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 92%|█████████▏| 1548/1674 [3:47:14<10:36,  5.05s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 93%|█████████▎| 1549/1674 [3:47:20<10:54,  5.23s/it]
 93%|█████████▎| 1550/1674 [3:47:23<09:41,  4.69s/it]
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS627
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975 MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
D1-1.CDF
FILES
D1-2.CDF
FILES
D1-3.CDF
FILES
D1-4.CDF
FILES
D1-5.CDF
FILES
D1-6.CDF
FILES
D4-1.CDF
FILES
D4-2.CDF
FILES
D4-3.CDF
FILES
D4-4.CDF
FILES
D4-5.CDF
FILES
D4-6.CDF
FILES
D5-1.CDF
FILES
D5-2.CDF
FILES
D5-3.CDF
FILES
D5-4.CDF
FILES
D5-5.CDF
FILES
PD5-1.CDF
FILES
PD5-2.CDF
FILES
PD5-3.CDF
FILES
PD5-4.CDF
FILES
Uterus-D1-1.CDF
FILES
Uterus-D1-2.CDF
FILES
Uterus-D1-3.CDF
FILES
Uterus-D1-4.CDF
FILES
Uterus-D1-5.CDF
FILES
Uterus-D1-6.CDF
FILES
Uterus-D4-1.CDF
FILES
Uterus-D4-2.CDF
FILES
Uterus-D4-3.CDF
FILES
Uterus-D4-4.CDF
FILES
Uterus-D4-5.CDF
FILES
Uterus-D4-6.CDF
FILES
Uterus-D5I-2.CDF
FILES
Uterus-D5I-4.CDF
FILES
Uterus-D5I-5.CDF
FILES
Uterus-D5I-6.CDF
FILES
Uterus-D5I-7.CDF
FILES
Uterus-D5II-2.CDF
FILES
Uterus-D5II-4.CDF
FILES
Uterus-D5II-5.CDF
FILES
Uterus-D5II-6.CDF
FILES
Uterus-D5II-7.CDF
FILES
Uterus-Dec-2.CDF
FILES
Uterus-Dec-3.CDF
FILES
Uterus-Dec-4.CDF
FILES
Uterus-Dec-8.CDF
FILES
Uterus-PD5-1.CDF
FILES
Uterus-PD5-2.CDF
FILES
Uterus-PD5-3.CDF
FILES
Uterus-PD5-4.CDF
FILES
Uterus-unDec-1.CDF
FILES
Uterus-unDec-2.CDF
FILES
Uterus-unDec-3.CDF
FILES
Uterus-unDec-4.CDF
FILES
Uterus-unDec-8.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Samples_Time elapsed
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 56 rows!
Added 56 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6311
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6337
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6495 Triple Quadrupole: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
G0_1.mzXML
FILES
DERIVED_FILES
G0_2.mzXML
FILES
DERIVED_FILES
G0_3.mzXML
FILES
DERIVED_FILES
G0_4.mzXML
FILES
DERIVED_FILES
G0_5.mzXML
FILES
DERIVED_FILES
G0_6.mzXML
FILES
DERIVED_FILES
G1_1.mzXML
FILES
DERIVED_FILES
G1_2.mzXML
FILES
DERIVED_FILES
G1_3.mzXML
FILES
DERIVED_FILES
G1_4.mzXML
FILES
DERIVED_FILES
G1_5.mzXML
FILES
DERIVED_FILES
G1_6.mzXML
FILES
DERIVED_FILES
M11_1.mzXML
FILES
DERIVED_FILES
M11_2.mzXML
FILES
DERIVED_FILES
M11_3.mzXML
FILES
DERIVED_FILES
M11_4.mzXML
FILES
DERIVED_FILES
M11_5.mzXML
FILES
DERIVED_FILES
M11_6.mzXML
FILES
DERIVED_FILES
QC01.mzXML
FILES
DERIVED_FILES
QC02.mzXML
FILES
DERIVED_FILES
QC03.mzXML
FILES
DERIVED_FILES
naive0_1.mzXML
FILES
DERIVED_FILES
naive0_2.mzXML
FILES
DERIVED_FILES
naive0_3.mzXML
FILES
DERIVED_FILES
naive0_4.mzXML
FILES
DERIVED_FILES
naive0_5.mzXML
FILES
DERIVED_FILES
naive0_6.mzXML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Collection timepoint
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1551/1674 [3:47:28<09:28,  4.62s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1552/1674 [3:47:35<11:05,  5.46s/it]
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  Samples_GABA dose
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6402
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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FILES
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JpStd1-pos.raw
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JpStd2-pos.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 4
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS642
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus 4D: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
1At0.cdf
FILES
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1Bt0.cdf
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7At2.cdf
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7At4.cdf
FILES
7At6.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1553/1674 [3:47:45<13:45,  6.82s/it]
FILES
7Bt0.cdf
FILES
7Bt1.cdf
FILES
7Bt2.cdf
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7Bt4.cdf
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7Bt6.cdf
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7Ct0.cdf
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High A t6.cdf
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Column Type 2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Variant
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain design
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Accession Number.6
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IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_time
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_arabinose supplementation time
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Source REF.6
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 165 rows!
Added 165 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6476
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
endometabolome
20220114_JS_QC3_endo_1.raw
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endometabolome
20220114_JS_QC3_endo_2.raw
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endometabolome
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endometabolome
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endometabolome
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endometabolome
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endometabolome
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endometabolome
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RAW_FILES
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RAW_FILES
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20220114_JS_QC3_exo_pos_ID.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Request successful!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6505
Request successful!
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1556/1674 [3:48:30<19:59, 10.17s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6516
Request successful!
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Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6537
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1558/1674 [3:48:44<16:51,  8.72s/it]
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Number of rows removed due to not enough metadata: 0
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6580
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 394 rows!
Added 394 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6586
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
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See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1561/1674 [3:49:11<15:32,  8.25s/it]
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Number of rows removed due to not enough metadata: 0
Returning 142 rows!
Added 142 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6603
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 56 rows!
Added 56 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6661
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
Ctrl_1.NEG.raw
FILES
RAW_FILES
Ctrl_1.POS.raw
FILES
RAW_FILES
Ctrl_2.NEG.raw
FILES
RAW_FILES
Ctrl_2.POS.raw
FILES
RAW_FILES
Ctrl_3.NEG.raw
FILES
RAW_FILES
Ctrl_3.POS.raw
FILES
RAW_FILES
Ctrl_4.NEG.raw
FILES
RAW_FILES
Ctrl_4.POS.raw
FILES
RAW_FILES
LA_1.NEG.raw
FILES
RAW_FILES
LA_1.POS.raw
FILES
RAW_FILES
LA_2.NEG.raw
FILES
RAW_FILES
LA_2.POS.raw
FILES
RAW_FILES
LA_3.NEG.raw
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1562/1674 [3:49:17<14:17,  7.66s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1563/1674 [3:49:23<13:06,  7.09s/it]
RAW_FILES
LA_3.POS.raw
FILES
RAW_FILES
LA_4.NEG.raw
FILES
RAW_FILES
LA_4.POS.raw
FILES
RAW_FILES
QC_1.NEG.raw
FILES
RAW_FILES
QC_1.POS.raw
FILES
RAW_FILES
QC_2.NEG.raw
FILES
RAW_FILES
QC_2.POS.raw
FILES
RAW_FILES
QC_3.NEG.raw
FILES
RAW_FILES
QC_3.POS.raw
FILES
RAW_FILES
blank.NEG.raw
FILES
RAW_FILES
blank.POS.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6663
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
N-H-He2-1.raw
FILES
RAW_FILES
NEG
N-H-He2-2.raw
FILES
RAW_FILES
NEG
N-H-He2-3.raw
FILES
RAW_FILES
NEG
N-H-He2-4.raw
FILES
RAW_FILES
NEG
N-H-He2-5.raw
FILES
RAW_FILES
NEG
N-H-He2-6.raw
FILES
RAW_FILES
NEG
N-H-M2-1.raw
FILES
RAW_FILES
NEG
N-H-M2-2.raw
FILES
RAW_FILES
NEG
N-H-M2-3.raw
FILES
RAW_FILES
NEG
N-H-M2-4.raw
FILES
RAW_FILES
NEG
N-H-M2-5.raw
FILES
RAW_FILES
NEG
N-H-M2-6.raw
FILES
RAW_FILES
NEG
N-L-He2-1.raw
FILES
RAW_FILES
NEG
N-L-He2-2.raw
FILES
RAW_FILES
NEG
N-L-He2-3.raw
FILES
RAW_FILES
NEG
N-L-He2-4.raw
FILES
RAW_FILES
NEG
N-L-He2-5.raw
FILES
RAW_FILES
NEG
N-L-He2-6.raw
FILES
RAW_FILES
NEG
N-L-M2-1.raw
FILES
RAW_FILES
NEG
N-L-M2-2.raw
FILES
RAW_FILES
NEG
N-L-M2-3.raw
FILES
RAW_FILES
NEG
N-L-M2-4.raw
FILES
RAW_FILES
NEG
N-L-M2-5.raw
FILES
RAW_FILES
NEG
N-L-M2-6.raw
FILES
RAW_FILES
NEG
N-QC1.raw
FILES
RAW_FILES
NEG
N-QC2.raw
FILES
RAW_FILES
NEG
N-QC3.raw
FILES
RAW_FILES
POS
p-H-He2-1.raw
FILES
RAW_FILES
POS
p-H-He2-2.raw
FILES
RAW_FILES
POS
p-H-He2-3.raw
FILES
RAW_FILES
POS
p-H-He2-4.raw
FILES
RAW_FILES
POS
p-H-He2-5.raw
FILES
RAW_FILES
POS
p-H-He2-6.raw
FILES
RAW_FILES
POS
p-H-M2-1.raw
FILES
RAW_FILES
POS
p-H-M2-2.raw
FILES
RAW_FILES
POS
p-H-M2-3.raw
FILES
RAW_FILES
POS
p-H-M2-4.raw
FILES
RAW_FILES
POS
p-H-M2-5.raw
FILES
RAW_FILES
POS
p-H-M2-6.raw
FILES
RAW_FILES
POS
p-L-He2-1.raw
FILES
RAW_FILES
POS
p-L-He2-2.raw
FILES
RAW_FILES
POS
p-L-He2-3.raw
FILES
RAW_FILES
POS
p-L-He2-4.raw
FILES
RAW_FILES
POS
p-L-He2-5.raw
FILES
RAW_FILES
POS
p-L-He2-6.raw
FILES
RAW_FILES
POS
p-L-M2-1.raw
FILES
RAW_FILES
POS
p-L-M2-2.raw
FILES
RAW_FILES
POS
p-L-M2-3.raw
FILES
RAW_FILES
POS
p-L-M2-4.raw
FILES
RAW_FILES
POS
p-L-M2-5.raw
FILES
RAW_FILES
POS
p-L-M2-6.raw
FILES
RAW_FILES
POS
p-QC1.raw
FILES
RAW_FILES
POS
p-QC2.raw
FILES
RAW_FILES
POS
p-QC3.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Diet
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 54 rows!
Added 54 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6677
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 240: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
DF48_001.raw
FILES
RAW_FILES
DF48_002.raw
FILES
RAW_FILES
DF48_005.raw
FILES
RAW_FILES
DF48_006.raw
FILES
RAW_FILES
DF48_007.raw
FILES
RAW_FILES
DF48_008.raw
FILES
RAW_FILES
DF48_011.raw
FILES
RAW_FILES
DF48_013.raw
FILES
RAW_FILES
DF48_014.raw
FILES
RAW_FILES
DF48_017.raw
FILES
RAW_FILES
DF48_018.raw
FILES
RAW_FILES
DF48_019.raw
FILES
RAW_FILES
DF48_020.raw
FILES
RAW_FILES
DF48_023.raw
FILES
RAW_FILES
DF48_024.raw
FILES
RAW_FILES
DF48_025.raw
FILES
RAW_FILES
DF48_026.raw
FILES
RAW_FILES
DF48_029.raw
FILES
RAW_FILES
DF48_031.raw
FILES
RAW_FILES
DF48_032.raw
FILES
RAW_FILES
DF48_035.raw
FILES
RAW_FILES
DF48_036.raw
IGNORED:  Assay_Term Source REF.1/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1564/1674 [3:49:29<12:04,  6.59s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 93%|█████████▎| 1565/1674 [3:49:34<11:10,  6.15s/it]
 94%|█████████▎| 1566/1674 [3:49:35<08:32,  4.74s/it]
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Medium volume
IGNORED:  Samples_Organism part
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Variant
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  Samples_Unit.1
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Labelling timepoint
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 22 rows!
Added 22 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS67
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
EMM2-N_0min_1st_NEG.mzML
FILES
EMM2-N_0min_1st_POS.mzML
FILES
EMM2-N_0min_2nd_NEG.mzML
FILES
EMM2-N_0min_2nd_POS.mzML
FILES
EMM2-N_0min_3rd_NEG.mzML
FILES
EMM2-N_0min_3rd_POS.mzML
FILES
EMM2-N_15min_1st_NEG.mzML
FILES
EMM2-N_15min_1st_POS.mzML
FILES
EMM2-N_15min_2nd_NEG.mzML
FILES
EMM2-N_15min_2nd_POS.mzML
FILES
EMM2-N_15min_3rd_NEG.mzML
FILES
EMM2-N_15min_3rd_POS.mzML
FILES
EMM2-N_30min_1st_NEG.mzML
FILES
EMM2-N_30min_1st_POS.mzML
FILES
EMM2-N_30min_2nd_NEG.mzML
FILES
EMM2-N_30min_2nd_POS.mzML
FILES
EMM2-N_30min_3rd_NEG.mzML
FILES
EMM2-N_30min_3rd_POS.mzML
FILES
EMM2-N_60min_1st_NEG.mzML
FILES
EMM2-N_60min_1st_POS.mzML
FILES
EMM2-N_60min_2nd_NEG.mzML
FILES
EMM2-N_60min_2nd_POS.mzML
FILES
EMM2-N_60min_3rd_NEG.mzML
FILES
EMM2-N_60min_3rd_POS.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Unit
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Time in nitrogen starvation
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Assay_Time in nitrogen starvation
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6715
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6733
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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QC_pool_25_LipidomicsLC_pos.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6735
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6736
Request successful!
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HF2_CP3_FZTM210045301-1A.mzML
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HF2_CP3_FZTM210045302-1A.mzML
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6758
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
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FILES
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HFX3_497960_CN_QC_ddMS2-114-610.mzML
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HFX3_497960_CN_QC_ddMS2-600-810.mzML
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HFX5_CN3_FZTM200026002-1A.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 94%|█████████▍| 1570/1674 [3:50:07<11:30,  6.64s/it]
 94%|█████████▍| 1571/1674 [3:50:17<13:05,  7.63s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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FILES
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HFX3_CP3_FZTM200026006-1A.mzML
IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 49 rows!
Added 49 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS676
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6760
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
20210902_08_Pos_EBC.raw
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20220108_02_Pos_Glutamine10000x.raw
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20220108_04_Pos_GlutamicAcid10000x.raw
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20220108_10_Pos_Oxoproline10000x.raw
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20220108_12_Pos_AspAcid100x.raw
IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 6
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6777
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Samples_Milk
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 174 rows!
Added 174 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS686
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 144 rows!
Added 144 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6863
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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02_20211203_Quinolinic_acid_only_Neg_12Cell_Data/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 50
Returning 40 rows!
Added 40 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6881
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
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FILES
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 94%|█████████▍| 1576/1674 [3:51:01<13:14,  8.10s/it]
 94%|█████████▍| 1577/1674 [3:51:03<10:28,  6.48s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 94%|█████████▍| 1578/1674 [3:51:10<10:30,  6.57s/it]
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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6886
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6890
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
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  nan: missing value
ENVOEnvironmentMaterial:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Accession Number.2
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Number of rows removed due to not enough metadata: 0
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6900
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 94%|█████████▍| 1579/1674 [3:51:16<10:11,  6.43s/it]
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
  LECO Pegasus HT TOFMS: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
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ENVOEnvironmentBiome:
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Number of rows removed due to not enough metadata: 0
Returning 79 rows!
Added 79 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6933
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 6545 Q-TOF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
DOF-W-neg.mzML
FILES
DERIVED_FILES
DOF-W-pos.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
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IGNORED:  Assay_Term Source REF
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 94%|█████████▍| 1580/1674 [3:51:20<08:43,  5.57s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 94%|█████████▍| 1581/1674 [3:51:26<08:47,  5.67s/it]
 95%|█████████▍| 1582/1674 [3:51:28<07:04,  4.61s/it]
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 2 rows!
Added 2 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6978
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap XL: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
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RAW_FILES
2020MR001_MOLU_001_01_CHK_H5.raw
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Assay_Data Transformation Name
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IGNORED:  Samples_Host Cell Line
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6982
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7006
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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  Thermo Scientific Q Exactive: missing value
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IonizationSourceAndPolarity:
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  : missing value
ENVOEnvironmentBiome:
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Exp2_GCMS_AID_K13_3.CDF/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 95%|█████████▍| 1583/1674 [3:51:34<07:35,  5.00s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 95%|█████████▍| 1584/1674 [3:51:41<08:23,  5.59s/it]
 95%|█████████▍| 1585/1674 [3:51:47<08:33,  5.77s/it]
FILES
RAW_FILES
Experiment_2_GCMS
Exp2_GCMS_TIR1_1.CDF
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Experiment_2_GCMS
Exp2_GCMS_TIR1_2.CDF
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FILES
RAW_FILES
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FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
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IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7060
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
  Agilent 5975C MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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RAW_FILES
GC_MS_AMT
Mmd3.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_Biological replicate
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Samples_Parasite line
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 36 rows!
Added 36 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7260
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7299
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  QE plus: missing value
  Agilent 5977B MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
FILES
BDN1-LC-NEG.raw
FILES
BDN1.raw
FILES
BDN2-LC-NEG.raw
FILES
BDN2.raw
FILES
BDN3-LC-NEG.raw
FILES
BDN3.raw
FILES
BDN4-LC-NEG.raw
FILES
BDN4.raw
FILES
BDN5-LC-NEG.raw
FILES
BDN5.raw
FILES
BDNR1-LC-NEG.raw
FILES
BDNR1.raw
FILES
BDNR2-LC-NEG.raw
FILES
BDNR2.raw
FILES
BDNR3-LC-NEG.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 95%|█████████▍| 1586/1674 [3:51:54<08:53,  6.06s/it]
FILES
BDNR3.raw
FILES
BDNR4-LC-NEG.raw
FILES
BDNR4.raw
FILES
BDNR5-LC-NEG.raw
FILES
BDNR5.raw
FILES
BDT1-LC-NEG.raw
FILES
BDT1.raw
FILES
BDT2-LC-NEG.raw
FILES
BDT2.raw
FILES
BDT3-LC-NEG.raw
FILES
BDT3.raw
FILES
BDT4-LC-NEG.raw
FILES
BDT4.raw
FILES
BDT5-LC-NEG.raw
FILES
BDT5.raw
FILES
BDTR1-LC-NEG.raw
FILES
BDTR1.raw
FILES
BDTR2-LC-NEG.raw
FILES
BDTR2.raw
FILES
BDTR3-LC-NEG.raw
FILES
BDTR3.raw
FILES
BDTR4-LC-NEG.raw
FILES
BDTR4.raw
FILES
BDTR5-LC-NEG.raw
FILES
BDTR5.raw
FILES
QC-1-LC-NEG.raw
FILES
QC-1.raw
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QC-2-LC-NEG.raw
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QC-2.raw
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QC-3-LC-NEG.raw
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QC-3.raw
FILES
QC-4-LC-NEG.raw
FILES
QC-4.raw
FILES
QC-5-LC-NEG.raw
FILES
QC-5.raw
FILES
RAW_FILES
GCMS
BDN1.D
FILES
RAW_FILES
GCMS
BDN2.D
FILES
RAW_FILES
GCMS
BDN3.D
FILES
RAW_FILES
GCMS
BDN4.D
FILES
RAW_FILES
GCMS
BDN5.D
FILES
RAW_FILES
GCMS
BDNR1.D
FILES
RAW_FILES
GCMS
BDNR2.D
FILES
RAW_FILES
GCMS
BDNR3.D
FILES
RAW_FILES
GCMS
BDNR4.D
FILES
RAW_FILES
GCMS
BDNR5.D
FILES
RAW_FILES
GCMS
BDT1.D
FILES
RAW_FILES
GCMS
BDT2.D
FILES
RAW_FILES
GCMS
BDT3.D
FILES
RAW_FILES
GCMS
BDT4.D
FILES
RAW_FILES
GCMS
BDT5.D
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RAW_FILES
GCMS
BDTR1.D
FILES
RAW_FILES
GCMS
BDTR2.D
FILES
RAW_FILES
GCMS
BDTR3.D
FILES
RAW_FILES
GCMS
BDTR4.D
FILES
RAW_FILES
GCMS
BDTR5.D
FILES
RAW_FILES
GCMS
QC-3.D
FILES
RAW_FILES
GCMS
QC-4.D
FILES
RAW_FILES
GCMS
QC-5.D
FILES
RAW_FILES
GCMS
QC-6.D
FILES
RAW_FILES
GCMS
QC-7.D
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 75
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS730
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_04.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_07.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_10.mzML
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Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_12.mzML
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Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_15.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_16.mzML
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Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_17.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_18.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_19.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_20.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_21.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_25.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_27.mzML
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Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_31.mzML
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Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_32.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_36.mzML
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Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_37.mzML
FILES
Method 1
QXA23POSEAR20201117_SRSI0120MD_MOUSE_TUMOR_42.mzML
FILES
Method 2
QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_04.mzML
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Method 2
QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_07.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_10.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_12.mzML
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Method 2
QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_15.mzML
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Method 2
QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_16.mzML
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Method 2
QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_17.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_18.mzML
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Method 2
QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_19.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_20.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_21.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_25.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_27.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_31.mzML
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Method 2
QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_32.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_36.mzML
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QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_37.mzML
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Method 2
QXA23POSLAT20201117_SRSI0120MD_MOUSE_TUMOR_42.mzML
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Method 3
QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_04.mzML
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Method 3
QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_07.mzML
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Method 3
QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_10.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_12.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_15.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_16.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_17.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_18.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_19.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_20.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_21.mzML
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Method 3
QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_25.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_27.mzML
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Method 3
QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_31.mzML
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QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_32.mzML
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Method 3
QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_36.mzML
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Method 3
QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_37.mzML
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Method 3
QXA22NEG20201117_SRSI0120MD_MOUSE_TUMOR_42.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_04.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_07.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_10.mzML
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QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_12.mzML
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QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_15.mzML
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Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_16.mzML
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QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_17.mzML
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QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_18.mzML
FILES
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QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_19.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_20.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 95%|█████████▍| 1587/1674 [3:52:04<10:23,  7.17s/it]
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_21.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_25.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_27.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_31.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_32.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_36.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_37.mzML
FILES
Method 4
QXA24POL20201117_SRSI0120MD_MOUSE_TUMOR_42.mzML
IGNORED:  Samples_Client Sample ID
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Group Name
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample Box Location
IGNORED:  Samples_Sample Amount
IGNORED:  Samples_Box Number
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Group Number
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Statistical Comparisons
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 72 rows!
Added 72 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7324
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 108 rows!
Added 108 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS74
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7424
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7429
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:97: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = value['missing']
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:166: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df[key] = df.apply(lambda x: age_category(x['AgeInYears']) if x['NCBITaxonomy'] == "9606|Homo sapiens" else value['missing'], axis=1)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:190: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['TaxonID'] = df['NCBITaxonomy'].apply(lambda x: x.split('|')[0] if '|' in x else 'missing value')
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Samples_Term Source REF.9
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Term Source REF.7
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Source REF.2
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Samples_Protocol REF
IGNORED:  Samples_Plate sample
IGNORED:  Samples_sex
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.9
IGNORED:  Assay_Scan polarity
IGNORED:  Is Fluid
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Severity
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Assay_Guard column
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  keep
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Samples_Term Source REF.8
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Samples_Survival
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Term Accession Number.8
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_BMI
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 4
Returning 211 rows!
Added 211 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7438
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
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IGNORED:  Samples_Term Accession Number.3
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IGNORED:  Samples_Term Source REF.1
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IGNORED:  Samples_Term Source REF.2
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Number of rows removed due to not enough metadata: 0
Returning 582 rows!
Added 582 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS752
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Waters Xevo G2-S Tof: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Spiking level
IGNORED:  Samples_Term Accession Number.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 95%|█████████▌| 1593/1674 [3:53:02<14:30, 10.74s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 95%|█████████▌| 1594/1674 [3:53:08<12:24,  9.31s/it]
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Term Accession Number.7
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IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7533
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific TSQ Quantum Ultra: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
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IGNORED:  Samples_Harmol Treatment
IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 26 rows!
Added 26 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7560
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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YearOfAnalysis:
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MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
  Thermo Scientific TSQ Vantage: missing value
UBERONBodyPartName:
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ENVOEnvironmentBiome:
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Hilic
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Hilic
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Plasma
Hilic
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Plasma
Hilic
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Hilic
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Hilic
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Plasma
Hilic
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Hilic
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Hilic
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Hilic
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Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
109_ID_47.mzXML
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
113_ID_90.mzXML
FILES
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Plasma
Hilic
114_ID_48.mzXML
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Plasma
Hilic
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Plasma
Hilic
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Plasma
Hilic
117_ID_113.mzXML
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DERIVED_FILES
Plasma
Hilic
118_ID_91.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
119_ID_49.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
120_ID_92.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
121_ID_93.mzXML
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DERIVED_FILES
Plasma
Hilic
122_QC.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
123_ID_50.mzXML
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DERIVED_FILES
Plasma
Hilic
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DERIVED_FILES
Plasma
Hilic
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Plasma
Hilic
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DERIVED_FILES
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Hilic
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DERIVED_FILES
Plasma
Hilic
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DERIVED_FILES
Plasma
Hilic
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DERIVED_FILES
Plasma
Hilic
131_ID_116.mzXML
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DERIVED_FILES
Plasma
Hilic
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DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
152_ID_54.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
166_ID_66.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
169_ID_68.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
171_ID_70.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
172_ID_71.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
173_QC.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
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FILES
DERIVED_FILES
Plasma
Hilic
176_STD_mix.mzXML
FILES
DERIVED_FILES
Plasma
Hilic
177_Solvent_blank.mzXML
FILES
DERIVED_FILES
Plasma
RP
001_Solvent_blank.mzXML
FILES
DERIVED_FILES
Plasma
RP
002_Solvent_blank.mzXML
FILES
DERIVED_FILES
Plasma
RP
003_STD_mix.mzXML
FILES
DERIVED_FILES
Plasma
RP
004_STD_mix.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
006_Process_blank_1.mzXML
FILES
DERIVED_FILES
Plasma
RP
007_Process_blank_2.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
015_ID_1.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
022_ID_108.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
027_ID_14.mzXML
FILES
DERIVED_FILES
Plasma
RP
028_ID_89.mzXML
FILES
DERIVED_FILES
Plasma
RP
029_ID_90.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
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Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
039_ID_61.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
047_QC.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
050_ID_45.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
055_ID_94.mzXML
FILES
DERIVED_FILES
Plasma
RP
056_ID_22.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
065_ID_111.mzXML
FILES
DERIVED_FILES
Plasma
RP
066_ID_53.mzXML
FILES
DERIVED_FILES
Plasma
RP
067_ID_68.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
069_QC.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
071_ID_37.mzXML
FILES
DERIVED_FILES
Plasma
RP
072_ID_104.mzXML
FILES
DERIVED_FILES
Plasma
RP
073_ID_87.mzXML
FILES
DERIVED_FILES
Plasma
RP
074_QC.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
084_ID_28.mzXML
FILES
DERIVED_FILES
Plasma
RP
085_ID_29.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
088_ID_35.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
094_ID_93.mzXML
FILES
DERIVED_FILES
Plasma
RP
095_ID_50.mzXML
FILES
DERIVED_FILES
Plasma
RP
096_ID_60.mzXML
FILES
DERIVED_FILES
Plasma
RP
097_ID_62.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
100_ID_103.mzXML
FILES
DERIVED_FILES
Plasma
RP
101_ID_43.mzXML
FILES
DERIVED_FILES
Plasma
RP
102_ID_12.mzXML
FILES
DERIVED_FILES
Plasma
RP
103_ID_16.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
106_ID_18.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
108_ID_76.mzXML
FILES
DERIVED_FILES
Plasma
RP
109_ID_77.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
113_ID_102.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
118_ID_85.mzXML
FILES
DERIVED_FILES
Plasma
RP
119_ID_41.mzXML
FILES
DERIVED_FILES
Plasma
RP
120_ID_49.mzXML
FILES
DERIVED_FILES
Plasma
RP
121_QC.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
123_ID_24.mzXML
FILES
DERIVED_FILES
Plasma
RP
124_ID_52.mzXML
FILES
DERIVED_FILES
Plasma
RP
125_ID_67.mzXML
FILES
DERIVED_FILES
Plasma
RP
126_ID_56.mzXML
FILES
DERIVED_FILES
Plasma
RP
127_QC.mzXML
FILES
DERIVED_FILES
Plasma
RP
128_ID_70.mzXML
FILES
DERIVED_FILES
Plasma
RP
129_ID_86.mzXML
FILES
DERIVED_FILES
Plasma
RP
130_ID_115.mzXML
FILES
DERIVED_FILES
Plasma
RP
131_ID_25.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
134_ID_74.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
136_ID_32.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
142_ID_110.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
146_ID_113.mzXML
FILES
DERIVED_FILES
Plasma
RP
147_ID_91.mzXML
FILES
DERIVED_FILES
Plasma
RP
148_ID_95.mzXML
FILES
DERIVED_FILES
Plasma
RP
149_ID_100.mzXML
FILES
DERIVED_FILES
Plasma
RP
150_ID_59.mzXML
FILES
DERIVED_FILES
Plasma
RP
151_ID_54.mzXML
FILES
DERIVED_FILES
Plasma
RP
152_ID_63.mzXML
FILES
DERIVED_FILES
Plasma
RP
153_ID_58.mzXML
FILES
DERIVED_FILES
Plasma
RP
154_QC.mzXML
FILES
DERIVED_FILES
Plasma
RP
155_QC.mzXML
FILES
DERIVED_FILES
Plasma
RP
156_QC.mzXML
FILES
DERIVED_FILES
Plasma
RP
157_SRM.mzXML
FILES
DERIVED_FILES
Plasma
RP
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FILES
DERIVED_FILES
Plasma
RP
159_STD_mix.mzXML
FILES
DERIVED_FILES
Plasma
RP
160_Solvent_blank.mzXML
FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
002_Blank.raw
FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
006_Matrix.raw
FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
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Feces
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FILES
RAW_FILES
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RAW_FILES
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Feces
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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Feces
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FILES
RAW_FILES
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Feces
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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FILES
RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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RAW_FILES
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FILES
RAW_FILES
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FILES
RAW_FILES
Targeted_LCMS
Feces
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FILES
RAW_FILES
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Targeted_LCMS/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Cohort
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Sample pairs
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
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IGNORED:  Assay_Derivatization
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IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
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IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
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IGNORED:  Assay_Label
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IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 23
Returning 773 rows!
Added 773 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7584
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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RAW_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
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IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
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IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
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IGNORED:  Is Organ
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 94 rows!
Added 94 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7603
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 44 rows!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 95%|█████████▌| 1597/1674 [3:53:49<13:28, 10.50s/it]
Added 44 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7612
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Exactive: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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MQ12-192-1ul-pos-070.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-071.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-072.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-073.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-074.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-075.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-076.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-077.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-078.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-079.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-080.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-081.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-082.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-083.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-084.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-085.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-086.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-087.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-088.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-089.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-090.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-091.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-092.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-097.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-098.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-099.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-101.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-102.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-103.raw
FILES
RAW_FILES
Untargeted
POS
MQ12-192-1ul-pos-104.raw
FILES
RAW_FILES
Untargeted
POS
QC1-pos.raw
FILES
RAW_FILES
Untargeted
POS
QC2-pos.raw
FILES
RAW_FILES
Untargeted
POS
QC3-pos.raw
FILES
RAW_FILES
Untargeted
POS
QC4-pos.raw
FILES
RAW_FILES
Untargeted
POS
QC5-pos.raw
FILES
RAW_FILES
Untargeted
POS
QC6-pos.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_gender
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Colon Region
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 218 rows!
Added 218 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7623
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7670
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7676
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  LECO Pegasus IV: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
B512.1_053.cdf
FILES
RAW_FILES
B512.2_054.cdf
FILES
RAW_FILES
B512.3_055.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▌| 1601/1674 [3:54:13<08:08,  6.69s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▌| 1602/1674 [3:54:18<07:28,  6.23s/it]
FILES
RAW_FILES
B512.4_056.cdf
FILES
RAW_FILES
B524.1_005.cdf
FILES
RAW_FILES
B524.2_006.cdf
FILES
RAW_FILES
B524.3_007.cdf
FILES
RAW_FILES
B524.4_008.cdf
FILES
RAW_FILES
B56.1_041.cdf
FILES
RAW_FILES
B56.2_042.cdf
FILES
RAW_FILES
B56.3_043.cdf
FILES
RAW_FILES
B56.4_044.cdf
FILES
RAW_FILES
B812.1_057.cdf
FILES
RAW_FILES
B812.2_058.cdf
FILES
RAW_FILES
B812.3_059.cdf
FILES
RAW_FILES
B812.4_060.cdf
FILES
RAW_FILES
B824.1_009.cdf
FILES
RAW_FILES
B824.2_010.cdf
FILES
RAW_FILES
B824.3_011.cdf
FILES
RAW_FILES
B824.4_012.cdf
FILES
RAW_FILES
B86.1_045.cdf
FILES
RAW_FILES
B86.2_046.cdf
FILES
RAW_FILES
B86.3_047.cdf
FILES
RAW_FILES
B86.4_048.cdf
FILES
RAW_FILES
BH12.1_049.cdf
FILES
RAW_FILES
BH12.2_050.cdf
FILES
RAW_FILES
BH12.3_051.cdf
FILES
RAW_FILES
BH12.4_052.cdf
FILES
RAW_FILES
BH24.1_001.cdf
FILES
RAW_FILES
BH24.2_002.cdf
FILES
RAW_FILES
BH24.3_003.cdf
FILES
RAW_FILES
BH24.4_004.cdf
FILES
RAW_FILES
BH6.1_037.cdf
FILES
RAW_FILES
BH6.2_038.cdf
FILES
RAW_FILES
BH6.3_039.cdf
FILES
RAW_FILES
BH6.4_040.cdf
FILES
RAW_FILES
Pool_1.cdf
FILES
RAW_FILES
Pool_2.cdf
FILES
RAW_FILES
pool.cdf
FILES
RAW_FILES
pool1.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Sample type_2
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Samples_Time Point
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Sample type_1
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Autosamplermodel
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Samples_Biological Replicate
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 40 rows!
Added 40 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7711
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
POS
QC-1_POS.mzML
FILES
DERIVED_FILES
POS
QC-2_POS.mzML
FILES
DERIVED_FILES
POS
QC-3_POS.mzML
FILES
DERIVED_FILES
POS
QC-4_POS.mzML
FILES
DERIVED_FILES
POS
SAR-R-1-POS.mzML
FILES
DERIVED_FILES
POS
SAR-R-2-POS.mzML
FILES
DERIVED_FILES
POS
SAR-R-3-POS.mzML
FILES
DERIVED_FILES
POS
SAR-R-4-POS.mzML
FILES
DERIVED_FILES
POS
SAR-R-5-POS.mzML
FILES
DERIVED_FILES
POS
SAR-R-6-POS.mzML
FILES
DERIVED_FILES
POS
SAR-S-1-POS.mzML
FILES
DERIVED_FILES
POS
SAR-S-2-POS.mzML
FILES
DERIVED_FILES
POS
SAR-S-3-POS.mzML
FILES
DERIVED_FILES
POS
SAR-S-4-POS.mzML
FILES
DERIVED_FILES
POS
SAR-S-5-POS.mzML
FILES
DERIVED_FILES
POS
SAR-S-6-POS.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7713
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NEG
QC-1_NEG.mzML
FILES
DERIVED_FILES
NEG
QC-2_NEG.mzML
FILES
DERIVED_FILES
NEG
QC-3_NEG.mzML
FILES
DERIVED_FILES
NEG
QC-4_NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-R-1-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-R-2-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-R-3-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-R-4-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-R-5-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-R-6-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-S-1-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-S-2-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-S-3-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-S-4-NEG.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▌| 1603/1674 [3:54:23<06:51,  5.79s/it]
 96%|█████████▌| 1604/1674 [3:54:24<05:20,  4.57s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▌| 1605/1674 [3:54:28<04:57,  4.32s/it]
FILES
DERIVED_FILES
NEG
SAR-S-5-NEG.mzML
FILES
DERIVED_FILES
NEG
SAR-S-6-NEG.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Samples_Strain
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7739
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7759
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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Neg-BP20230009-K252a-MSCs-Sur-1.raw
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Neg-BP20230009-K252a-MSCs-Sur-2.raw
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
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IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
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IGNORED:  Samples_Sample Name
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IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
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IGNORED:  Samples_Sample type
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IGNORED:  Assay_Guard column
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IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7776
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
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  Agilent 6530 Accurate-Mass Q-TOF: missing value
UBERONBodyPartName:
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NEG
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FILES
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NEG
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FILES
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NEG
Petrick070_MX437720_negCSH_BPL1415-0560-070.mzML
FILES
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NEG
Petrick072_MX437720_negCSH_BPL1415-0562-072.mzML
FILES
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NEG
Petrick073_MX437720_negCSH_BPL1415-0563-073.mzML
FILES
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NEG
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FILES
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NEG
Petrick075_MX437720_negCSH_BPL1415-0565-075.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick077_MX437720_negCSH_BPL1415-0567-077.mzML
FILES
DERIVED_FILES
NEG
Petrick078_MX437720_negCSH_BPL1415-0568-078.mzML
FILES
DERIVED_FILES
NEG
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FILES
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NEG
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FILES
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NEG
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FILES
DERIVED_FILES
NEG
Petrick082_MX437720_negCSH_BPL1415-0572-082.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick084_MX437720_negCSH_BPL1415-0574-084.mzML
FILES
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NEG
Petrick085_MX437720_negCSH_BPL1415-0575-085.mzML
FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick090_MX437720_negCSH_BPL1415-0580-090.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
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NEG
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FILES
DERIVED_FILES
NEG
Petrick095_MX437720_negCSH_BPL1415-0585-095.mzML
FILES
DERIVED_FILES
NEG
Petrick096_MX437720_negCSH_BPL1415-0586-096.mzML
FILES
DERIVED_FILES
NEG
Petrick098_MX437720_negCSH_BPL1415-0588-098.mzML
FILES
DERIVED_FILES
NEG
Petrick099_MX437720_negCSH_BPL1415-0589-099.mzML
FILES
DERIVED_FILES
NEG
Petrick100_MX437720_negCSH_BPL1415-0590-100.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick102_MX437720_negCSH_BPL1415-0592-102.mzML
FILES
DERIVED_FILES
NEG
Petrick103_MX437720_negCSH_BPL1415-0593-103.mzML
FILES
DERIVED_FILES
NEG
Petrick104_MX437720_negCSH_BPL1415-0594-104.mzML
FILES
DERIVED_FILES
NEG
Petrick105_MX437720_negCSH_BPL1415-0595-105.mzML
FILES
DERIVED_FILES
NEG
Petrick106_MX437720_negCSH_BPL1415-0596-106.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick111_MX437720_negCSH_BPL1415-0601-111.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick113_MX437720_negCSH_BPL1415-0603-113.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick115_MX437720_negCSH_BPL1415-0605-115.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick117_MX437720_negCSH_BPL1415-0607-117.mzML
FILES
DERIVED_FILES
NEG
Petrick118_MX437720_negCSH_BPL1415-0608-118.mzML
FILES
DERIVED_FILES
NEG
Petrick119_MX437720_negCSH_BPL1415-0609-119.mzML
FILES
DERIVED_FILES
NEG
Petrick120_MX437720_negCSH_BPL1415-0610-120.mzML
FILES
DERIVED_FILES
NEG
Petrick121_MX437720_negCSH_BPL1415-0611-121.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick123_MX437720_negCSH_BPL1415-0613-123_2.mzML
FILES
DERIVED_FILES
NEG
Petrick124_MX437720_negCSH_BPL1415-0614-124_2.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick128_MX437720_negCSH_BPL1415-0618-128.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick130_MX437720_negCSH_BPL1415-0620-130.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick137_MX437720_negCSH_BPL1415-0627-137.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick139_MX437720_negCSH_BPL1415-0629-139.mzML
FILES
DERIVED_FILES
NEG
Petrick140_MX437720_negCSH_BPL1415-0630-140.mzML
FILES
DERIVED_FILES
NEG
Petrick141_MX437720_negCSH_BPL1415-0631-141.mzML
FILES
DERIVED_FILES
NEG
Petrick142_MX437720_negCSH_BPL1415-0632-142.mzML
FILES
DERIVED_FILES
NEG
Petrick143_MX437720_negCSH_BPL1415-0633-143.mzML
FILES
DERIVED_FILES
NEG
Petrick144_MX437720_negCSH_BPL1415-0634-144.mzML
FILES
DERIVED_FILES
NEG
Petrick145_MX437720_negCSH_BPL1415-0635-145.mzML
FILES
DERIVED_FILES
NEG
Petrick146_MX437720_negCSH_BPL1415-0636-146.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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FILES
DERIVED_FILES
NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
Petrick168_MX437720_negCSH_BPL1415-0658-168.mzML
FILES
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NEG
Petrick169_MX437720_negCSH_BPL1415-0659-169.mzML
FILES
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NEG
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FILES
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NEG
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FILES
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NEG
Petrick172_MX437720_negCSH_BPL1415-0662-172.mzML
FILES
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NEG
Petrick173_MX437720_negCSH_BPL1415-0663-173.mzML
FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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Petrick200_MX437720_negCSH_BPL1415-0690-200.mzML
FILES
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FILES
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FILES
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FILES
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FILES
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Petrick206_MX437720_negCSH_BPL1415-0696-206.mzML
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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Petrick268_MX437720_negCSH_BPL1415-0758-268.mzML
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Petrick269_MX437720_negCSH_BPL1415-0759-269.mzML
FILES
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FILES
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NEG
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DERIVED_FILES
NEG
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NEG
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FILES
DERIVED_FILES
NEG
Petrick275_MX437720_negCSH_BPL1415-0765-275.mzML
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DERIVED_FILES
NEG
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DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick278_MX437720_negCSH_BPL1415-0768-278.mzML
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NEG
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NEG
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FILES
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NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick283_MX437720_negCSH_BPL1415-0773-283.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick287_MX437720_negCSH_BPL1415-0777-287.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick290_MX437720_negCSH_BPL1415-0780-290.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick294_MX437720_negCSH_BPL1415-0784-294.mzML
FILES
DERIVED_FILES
NEG
Petrick295_MX437720_negCSH_BPL1415-0785-295.mzML
FILES
DERIVED_FILES
NEG
Petrick297_MX437720_negCSH_BPL1415-0787-297.mzML
FILES
DERIVED_FILES
NEG
Petrick298_MX437720_negCSH_BPL1415-0788-298.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick300_MX437720_negCSH_BPL1415-0790-300.mzML
FILES
DERIVED_FILES
NEG
Petrick301_MX437720_negCSH_BPL1415-0791-301.mzML
FILES
DERIVED_FILES
NEG
Petrick302_MX437720_negCSH_BPL1415-0792-302.mzML
FILES
DERIVED_FILES
NEG
Petrick303_MX437720_negCSH_BPL1415-0793-303.mzML
FILES
DERIVED_FILES
NEG
Petrick304_MX437720_negCSH_BPL1415-0794-304.mzML
FILES
DERIVED_FILES
NEG
Petrick305_MX437720_negCSH_BPL1415-0795-305.mzML
FILES
DERIVED_FILES
NEG
Petrick306_MX437720_negCSH_BPL1415-0796-306.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick308_MX437720_negCSH_BPL1415-0798-308.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick310_MX437720_negCSH_BPL1415-0800-310.mzML
FILES
DERIVED_FILES
NEG
Petrick311_MX437720_negCSH_BPL1415-0801-311.mzML
FILES
DERIVED_FILES
NEG
Petrick312_MX437720_negCSH_BPL1415-0802-312.mzML
FILES
DERIVED_FILES
NEG
Petrick313_MX437720_negCSH_BPL1415-0803-313.mzML
FILES
DERIVED_FILES
NEG
Petrick314_MX437720_negCSH_BPL1415-0804-314.mzML
FILES
DERIVED_FILES
NEG
Petrick316_MX437720_negCSH_BPL1415-0806-316.mzML
FILES
DERIVED_FILES
NEG
Petrick317_MX437720_negCSH_BPL1415-0807-317.mzML
FILES
DERIVED_FILES
NEG
Petrick318_MX437720_negCSH_BPL1415-0808-318.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick323_MX437720_negCSH_BPL1415-0813-323.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick325_MX437720_negCSH_BPL1415-0815-325.mzML
FILES
DERIVED_FILES
NEG
Petrick326_MX437720_negCSH_BPL1415-0816-326.mzML
FILES
DERIVED_FILES
NEG
Petrick327_MX437720_negCSH_BPL1415-0817-327.mzML
FILES
DERIVED_FILES
NEG
Petrick328_MX437720_negCSH_BPL1415-0818-328.mzML
FILES
DERIVED_FILES
NEG
Petrick329_MX437720_negCSH_BPL1415-0819-329.mzML
FILES
DERIVED_FILES
NEG
Petrick330_MX437720_negCSH_BPL1415-0820-330.mzML
FILES
DERIVED_FILES
NEG
Petrick332_MX437720_negCSH_BPL1415-0822-332.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick336_MX437720_negCSH_BPL1415-0826-336.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick338_MX437720_negCSH_BPL1415-0828-338.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick340_MX437720_negCSH_BPL1415-0830-340.mzML
FILES
DERIVED_FILES
NEG
Petrick341_MX437720_negCSH_BPL1415-0831-341.mzML
FILES
DERIVED_FILES
NEG
Petrick343_MX437720_negCSH_BPL1415-0833-343.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick345_MX437720_negCSH_BPL1415-0835-345.mzML
FILES
DERIVED_FILES
NEG
Petrick346_MX437720_negCSH_BPL1415-0836-346.mzML
FILES
DERIVED_FILES
NEG
Petrick347_MX437720_negCSH_BPL1415-0837-347.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick349_MX437720_negCSH_BPL1415-0839-349.mzML
FILES
DERIVED_FILES
NEG
Petrick350_MX437720_negCSH_BPL1415-0840-350.mzML
FILES
DERIVED_FILES
NEG
Petrick351_MX437720_negCSH_BPL1415-0841-351.mzML
FILES
DERIVED_FILES
NEG
Petrick352_MX437720_negCSH_BPL1415-0842-352.mzML
FILES
DERIVED_FILES
NEG
Petrick353_MX437720_negCSH_BPL1415-0843-353.mzML
FILES
DERIVED_FILES
NEG
Petrick354_MX437720_negCSH_BPL1415-0844-354.mzML
FILES
DERIVED_FILES
NEG
Petrick355_MX437720_negCSH_BPL1415-0845-355.mzML
FILES
DERIVED_FILES
NEG
Petrick356_MX437720_negCSH_BPL1415-0846-356.mzML
FILES
DERIVED_FILES
NEG
Petrick357_MX437720_negCSH_BPL1415-0847-357.mzML
FILES
DERIVED_FILES
NEG
Petrick358_MX437720_negCSH_BPL1415-0848-358.mzML
FILES
DERIVED_FILES
NEG
Petrick359_MX437720_negCSH_BPL1415-0849-359.mzML
FILES
DERIVED_FILES
NEG
Petrick360_MX437720_negCSH_BPL1415-0850-360.mzML
FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
Petrick365_MX437720_negCSH_BPL1415-0855-365.mzML
FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
Petrick372_MX437720_negCSH_BPL1415-0862-372.mzML
FILES
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NEG
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FILES
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NEG
Petrick374_MX437720_negCSH_BPL1415-0864-374.mzML
FILES
DERIVED_FILES
NEG
Petrick375_MX437720_negCSH_BPL1415-0865-375.mzML
FILES
DERIVED_FILES
NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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Petrick382_MX437720_negCSH_BPL1415-0872-382.mzML
FILES
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NEG
Petrick383_MX437720_negCSH_BPL1415-0873-383.mzML
FILES
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NEG
Petrick384_MX437720_negCSH_BPL1415-0874-384.mzML
FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
NEG
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FILES
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NEG
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FILES
DERIVED_FILES
NEG
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FILES
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NEG
Petrick389_MX437720_negCSH_BPL1415-0879-389.mzML
FILES
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NEG
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FILES
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NEG
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FILES
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NEG
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FILES
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NEG
Petrick394_MX437720_negCSH_BPL1415-0884-394.mzML
FILES
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NEG
Petrick395_MX437720_negCSH_BPL1415-0885-395.mzML
FILES
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NEG
Petrick396_MX437720_negCSH_BPL1415-0886-396.mzML
FILES
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NEG
Petrick397_MX437720_negCSH_BPL1415-0887-397.mzML
FILES
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NEG
Petrick398_MX437720_negCSH_BPL1415-0888-398.mzML
FILES
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NEG
Petrick399_MX437720_negCSH_BPL1415-0889-399.mzML
FILES
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NEG
Petrick400_MX437720_negCSH_BPL1415-0890-400.mzML
FILES
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NEG
Petrick401_MX437720_negCSH_BPL1415-0891-401.mzML
FILES
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NEG
Petrick402_MX437720_negCSH_BPL1415-0892-402.mzML
FILES
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NEG
Petrick404_MX437720_negCSH_BPL1415-0894-404.mzML
FILES
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NEG
Petrick405_MX437720_negCSH_BPL1415-0895-405.mzML
FILES
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NEG
Petrick406_MX437720_negCSH_BPL1415-0896-406.mzML
FILES
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NEG
Petrick407_MX437720_negCSH_BPL1415-0897-407.mzML
FILES
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NEG
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FILES
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NEG
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FILES
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FILES
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FILES
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NEG
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FILES
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NEG
Petrick413_MX437720_negCSH_BPL1415-0903-413.mzML
FILES
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NEG
Petrick414_MX437720_negCSH_BPL1415-0904-414.mzML
FILES
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NEG
Petrick415_MX437720_negCSH_BPL1415-0905-415.mzML
FILES
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NEG
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FILES
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NEG
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FILES
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FILES
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FILES
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FILES
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NEG
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FILES
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FILES
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NEG
Petrick425_MX437720_negCSH_BPL1415-0915-425.mzML
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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NEG
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FILES
DERIVED_FILES
NEG
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FILES
DERIVED_FILES
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DERIVED_FILES
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DERIVED_FILES
NEG
PoolQC011_MX437720_negCSH_postPetrick100.mzML
FILES
DERIVED_FILES
NEG
PoolQC012_MX437720_negCSH_postPetrick110.mzML
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PoolQC020_MX437720_posCSH_postPetrick190.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
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Number of rows removed due to not enough metadata: 0
Returning 1176 rows!
Added 1176 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7807
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7808
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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ENVOEnvironmentBiome:
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Column model/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▌| 1608/1674 [3:55:01<08:16,  7.53s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▌| 1609/1674 [3:55:09<08:25,  7.77s/it]
IGNORED:  Assay_Term Accession Number.1
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Number of rows removed due to not enough metadata: 0
Returning 42 rows!
Added 42 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7840
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 66 rows!
Added 66 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7866
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
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pos_n7.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Returning 70 rows!
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Returning 34 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7889
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Fermentation_3_Media_test_010.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▋| 1612/1674 [3:56:01<16:51, 16.32s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▋| 1613/1674 [3:56:10<14:14, 14.01s/it]
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Number of rows removed due to not enough metadata: 0
Returning 1181 rows!
Added 1181 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7978
Request successful!
SampleCollectionMethod: ADDED!
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IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8012
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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DepthorAltitudeMeters: ADDED!
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70.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▋| 1614/1674 [3:56:18<12:10, 12.18s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 96%|█████████▋| 1615/1674 [3:56:25<10:28, 10.66s/it]
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 556 rows!
Added 556 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8090
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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HealthStatus: ADDED!
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Country: ADDED!
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qiita_sample_name: ADDED!
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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Number of rows removed due to not enough metadata: 0
Returning 140 rows!
Added 140 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8105
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
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MassSpectrometer:
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IonizationSourceAndPolarity:
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LCMS/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Mutant
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
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IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 253 rows!
Added 253 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8109
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 120: missing value
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462 Scan.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
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Returning 0 rows!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8216
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1620/1674 [3:57:20<08:59, 10.00s/it]
qiita_sample_name: ADDED!
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8280
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Term Source REF.3
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IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Term Accession Number.2
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IGNORED:  Assay_Protocol REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1621/1674 [3:57:29<08:46,  9.93s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1622/1674 [3:57:33<07:05,  8.17s/it]
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 172 rows!
Added 172 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8281
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
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TermsofPosition: ADDED!
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ComorbidityListDOIDIndex: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  AB SCIEX QTRAP 6500: missing value
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Number of rows removed due to not enough metadata: 0
Returning 12 rows!
Added 12 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8390
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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0058_QUI_Chagas_HP-targ_i20.d/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1623/1674 [3:57:38<06:05,  7.18s/it]
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
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IGNORED:  Samples_Protocol REF
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IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 73 rows!
Added 73 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8391
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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YearOfAnalysis:
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MassSpectrometer:
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1624/1674 [3:57:46<06:04,  7.29s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1625/1674 [3:57:52<05:43,  7.01s/it]
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Returning 27 rows!
Added 27 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8485
Request successful!
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Added 18 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8621
Request successful!
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DERIVED_FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1626/1674 [3:57:58<05:19,  6.66s/it]
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X00874-pos.mzXML
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X00875-pos.mzXML
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8644
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FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1627/1674 [3:58:05<05:13,  6.67s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1628/1674 [3:58:10<04:45,  6.21s/it]
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Number of rows removed due to not enough metadata: 0
Returning 160 rows!
Added 160 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8682
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS87
Request successful!
SampleCollectionMethod: ADDED!
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FILES
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Person1_Blood_POS.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1629/1674 [3:58:15<04:24,  5.88s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1630/1674 [3:58:20<04:08,  5.65s/it]
FILES
Person1_Plasma_NEG.mzML
FILES
Person1_Plasma_POS.mzML
FILES
Person1_RBC_NEG.mzML
FILES
Person1_RBC_POS.mzML
FILES
Person2_Blood_NEG.mzML
FILES
Person2_Blood_POS.mzML
FILES
Person2_Plasma_NEG.mzML
FILES
Person2_Plasma_POS.mzML
FILES
Person2_RBC_NEG.mzML
FILES
Person2_RBC_POS.mzML
FILES
Person2_WBC_NEG.mzML
FILES
Person2_WBC_POS.mzML
FILES
Person3_Blood_NEG.mzML
FILES
Person3_Blood_POS.mzML
FILES
Person3_Plasma_NEG.mzML
FILES
Person3_Plasma_POS.mzML
FILES
Person3_RBC_NEG.mzML
FILES
Person3_RBC_POS.mzML
FILES
Person3_WBC_NEG.mzML
FILES
Person3_WBC_POS.mzML
FILES
Spombe_cell_sample1_NEG.mzML
FILES
Spombe_cell_sample1_POS.mzML
FILES
Spombe_cell_sample2_NEG.mzML
FILES
Spombe_cell_sample2_POS.mzML
FILES
Spombe_cell_sample3_NEG.mzML
FILES
Spombe_cell_sample3_POS.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Samples_material sample
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_material sample
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 28 rows!
Added 28 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS873
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5977A MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
FLC M1 20180104.cdf
FILES
FLC M10 20180104.cdf
FILES
FLC M11 20180104.cdf
FILES
FLC M12 20180104.cdf
FILES
FLC M13 20180104.cdf
FILES
FLC M14 20180104.cdf
FILES
FLC M15 20180104.cdf
FILES
FLC M16 20180104.cdf
FILES
FLC M17 20180104.cdf
FILES
FLC M18 20180104.cdf
FILES
FLC M19 20180104.cdf
FILES
FLC M2 20180104.cdf
FILES
FLC M20 20180104.cdf
FILES
FLC M21 20180104.cdf
FILES
FLC M22 20180104.cdf
FILES
FLC M23 20180104.cdf
FILES
FLC M24 20180104.cdf
FILES
FLC M3 20180104.cdf
FILES
FLC M4 20180104.cdf
FILES
FLC M5 20180104.cdf
FILES
FLC M6 20180104.cdf
FILES
FLC M7 20180104.cdf
FILES
FLC M8 20180104.cdf
FILES
FLC M9 20180104.cdf
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Samples_Indomethacin dose
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Samples_Cell line
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8764
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
  Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_03.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_04.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_05.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_06.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_07.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_08.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_09.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_10.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_12.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_13.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_14.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_15.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_16.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_17.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_18.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_19.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_20.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_21.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_23.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_24.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_25.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_26.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_27.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_28.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_29.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_30.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_31.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_33.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_34.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_35.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_36.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_37.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_38.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_39.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_40.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM10_42.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_03.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_04.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_05.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_06.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_07.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_08.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_09.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_10.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_12.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_13.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_14.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_15.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_16.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_17.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_18.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_19.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_20.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_21.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_23.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_24.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_25.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_26.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_27.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_28.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_29.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_30.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_31.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_33.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_34.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_35.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_36.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_37.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_38.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_39.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_40.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM11_42.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_03.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_04.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_05.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_06.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_07.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_08.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_09.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_10.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_12.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_13.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_14.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_15.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_16.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_17.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_18.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_19.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_20.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_21.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_23.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_24.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_25.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_26.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_27.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_28.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_29.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_30.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_31.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_33.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_34.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_35.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_36.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_37.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_38.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_39.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_40.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM8_42.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_03.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_04.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_05.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_06.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_07.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_08.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_09.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_10.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_12.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_13.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_14.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_15.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_16.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_17.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_18.mzML
FILES
Method 1
QXA07POSEAR20211208_MDAC0421MD_HUMAN_SERUM9_19.mzML
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QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_18.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_19.mzML
FILES
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QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_20.mzML
FILES
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QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_21.mzML
FILES
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QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_23.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_24.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_25.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_26.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_27.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_28.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_29.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_30.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_31.mzML
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QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_33.mzML
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QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_34.mzML
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Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_35.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_36.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_37.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_38.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_39.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_40.mzML
FILES
Method 4
QXA24POL20211210_MDAC0421MD_HUMAN_SERUM17_42.mzML
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IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
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IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
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IGNORED:  Assay_Scan m/z range
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IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
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IGNORED:  Assay_Term Accession Number.17
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IGNORED:  Assay_Term Source REF.5
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IGNORED:  Assay_Term Source REF.14
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IGNORED:  Samples_Term Source REF.4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 97%|█████████▋| 1631/1674 [3:59:33<18:25, 25.71s/it]
 97%|█████████▋| 1632/1674 [3:59:35<13:05, 18.71s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1633/1674 [3:59:41<10:07, 14.82s/it]
 98%|█████████▊| 1634/1674 [3:59:47<08:09, 12.23s/it]
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1636/1674 [3:59:57<05:29,  8.66s/it]
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 2448 rows!
Added 2448 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8784
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8806
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
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MassSpectrometer:
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UBERONBodyPartName:
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FILES
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RAW_FILES
KXS-POS.raw
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KXS-neg.raw
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Number of rows removed due to not enough metadata: 2
Returning 2 rows!
Added 2 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS881
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS884
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS892
Request successful!
SampleCollectionMethod: ADDED!
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Country: ADDED!
HumanPopulationDensity: ADDED!
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qiita_sample_name: ADDED!
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Is Multicellular
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IGNORED:  Samples_Organism part
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IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
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Number of rows removed due to not enough metadata: 0
Returning 43 rows!
Added 43 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8955
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1637/1674 [4:00:05<05:12,  8.43s/it]
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
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HC79_m_60_CCp_x15_POS_100.mzML
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SZ5_m_62_CCa_x15_POS_059.mzML
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SZ5_m_62_CCp_x15_POS_073.mzML
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SZ8_f_56_CCa_x15_POS_035.mzML
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SZ8_f_56_CCp_x15_POS_013.mzML
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DERIVED_FILES
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SZ9_m_57_CCa_x15_POS_016.mzML
FILES
DERIVED_FILES
pos
SZ9_m_57_CCp_x15_POS_101.mzML
FILES
DERIVED_FILES
pos
TQC.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Disease
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Samples_gender
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Brain region
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 100 rows!
Added 100 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8957/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1638/1674 [4:00:11<04:32,  7.56s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1639/1674 [4:00:14<03:42,  6.35s/it]
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  SCIEX QTRAP System: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
NEG
IRA-1_N.mzML
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IRA-2_N.mzML
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IGNORED:  Assay_Term Source REF.1
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IGNORED:  Assay_Labeled Extract Name
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Breed
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 32 rows!
Added 32 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS8958
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 7000D Triple Quadrupole: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
DERIVED_FILES
IRA-1.mzML
FILES
DERIVED_FILES
IRA-2.mzML
FILES
DERIVED_FILES
IRA-3.mzML
FILES
DERIVED_FILES
IRA-4.mzML
FILES
DERIVED_FILES
IRA-5.mzML
FILES
DERIVED_FILES
IRA-6.mzML
FILES
DERIVED_FILES
IRA-7.mzML
FILES
DERIVED_FILES
IRA-8.mzML
FILES
DERIVED_FILES
SX-1.mzML
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DERIVED_FILES
SX-2.mzML
FILES
DERIVED_FILES
SX-3.mzML
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DERIVED_FILES
SX-4.mzML
FILES
DERIVED_FILES
SX-5.mzML
FILES
DERIVED_FILES
SX-6.mzML
FILES
DERIVED_FILES
SX-7.mzML
FILES
DERIVED_FILES
SX-8.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  Samples_Breed
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9001
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 240: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
07252022_001.mzXML
FILES
07252022_002.mzXML
FILES
07252022_003.mzXML
FILES
07252022_004.mzXML
FILES
07252022_005.mzXML
FILES
07252022_006.mzXML
FILES
07252022_007.mzXML
FILES
07252022_008.mzXML
FILES
07252022_009.mzXML
FILES
07252022_010.mzXML
FILES
07252022_011.mzXML
FILES
07252022_012.mzXML
FILES
07252022_013.mzXML
FILES
07252022_014.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1640/1674 [4:00:23<04:05,  7.23s/it]
FILES
07252022_016.mzXML
FILES
07252022_017.mzXML
FILES
07252022_018.mzXML
FILES
07252022_019.mzXML
FILES
07252022_020.mzXML
FILES
07252022_021.mzXML
FILES
07252022_022.mzXML
FILES
07252022_023.mzXML
FILES
07252022_024.mzXML
FILES
07252022_027.mzXML
FILES
07252022_029.mzXML
FILES
07252022_030.mzXML
FILES
07252022_031.mzXML
FILES
07252022_032.mzXML
FILES
07252022_034.mzXML
FILES
07252022_035.mzXML
FILES
07252022_036.mzXML
FILES
07252022_039.mzXML
FILES
07252022_040.mzXML
FILES
07252022_041.mzXML
FILES
07252022_042.mzXML
FILES
07252022_043.mzXML
FILES
07252022_044.mzXML
FILES
07252022_045.mzXML
FILES
07252022_047.mzXML
FILES
07252022_048.mzXML
FILES
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IGNORED:  Samples_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1641/1674 [4:00:27<03:27,  6.29s/it]
 98%|█████████▊| 1642/1674 [4:00:30<02:46,  5.21s/it]
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Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9221
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IGNORED:  Samples_Term Accession Number.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1643/1674 [4:00:41<03:37,  7.01s/it]
IGNORED:  Samples_Term Accession Number.4
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IGNORED:  Assay_Term Accession Number.4
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Number of rows removed due to not enough metadata: 186
Returning 1 rows!
Added 1 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9264
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
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IGNORED:  Assay_Term Source REF.1
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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1644/1674 [4:00:50<03:41,  7.40s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1645/1674 [4:00:56<03:23,  7.02s/it]
Number of rows removed due to not enough metadata: 0
Returning 228 rows!
Added 228 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9365
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
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ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
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DepthorAltitudeMeters: ADDED!
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Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9434
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
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HealthStatus: ADDED!
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qiita_sample_name: ADDED!
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Liver_NASH_Mouse
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051_HN_L_L21_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
052_HN_L_L9_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
053_HN_L_L15_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
054_HN_L_QC18.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
055_HN_L_L2_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
056_HN_L_L17_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
057_HN_L_L26_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
058_HN_L_L32_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
059_HN_L_L1_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
060_HN_L_L31_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
NEG
061_HN_L_QC19.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
019_HP_L_QC13.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
020_HP_L_L10_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
021_HP_L_L29_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
022_HP_L_L19_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
023_HP_L_L36_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
024_HP_L_L30_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
025_HP_L_L24_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
026_HP_L_QC14.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
027_HP_L_L23_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
028_HP_L_L12_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
029_HP_L_L6_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
030_HP_L_L14_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
031_HP_L_L8_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
032_HP_L_L22_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
033_HP_L_QC15.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
034_HP_L_L28_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
035_HP_L_L35_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
036_HP_L_L5_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
037_HP_L_L11_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
038_HP_L_L4_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
039_HP_L_L20_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
040_HP_L_QC16.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
041_HP_L_L3_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
042_HP_L_L27_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
043_HP_L_L16_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
044_HP_L_L13_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
045_HP_L_L33_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
046_HP_L_L18_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
047_HP_L_QC17.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
048_HP_L_L25_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
049_HP_L_L34_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
050_HP_L_L7_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
051_HP_L_L21_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
052_HP_L_L9_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
053_HP_L_L15_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
054_HP_L_QC18.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
055_HP_L_L2_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
056_HP_L_L17_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
057_HP_L_L26_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
058_HP_L_L32_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
059_HP_L_L1_Vehicle.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
060_HP_L_L31_MKK4i.d
FILES
RAW_FILES
Liver_NASH_Mouse
POS
061_HP_L_QC19.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
019_HILIC_neg_L_QC13.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
020_HILIC_neg_L_SWC HRX 4.4_Vehicle.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
021_HILIC_neg_L_SW HRX215 4.4_LN3448.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
022_HILIC_neg_L_SW HRX215 4.3_LN3448.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
023_HILIC_neg_L_QC14.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
024_HILIC_neg_L_SWC HRX 4.2_Vehicle.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
025_HILIC_neg_L_SW HRX215 4.2_LN3448.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
026_HILIC_neg_L_SWC HRX 4.3_Vehicle.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
027_HILIC_neg_L_QC15.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
028_HILIC_neg_L_SW HRX215 4.1_LN3448.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
029_HILIC_neg_L_SWC HRX 4.1_Vehicle.d
FILES
RAW_FILES
Liver_WT_Mouse
NEG
030_HILIC_neg_L_QC16.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
019_HILIC_pos_L_QC13.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
020_HILIC_pos_L_SWC HRX 4.4_Vehicle.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
021_HILIC_pos_L_SW HRX215 4.4_LN3448.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
022_HILIC_pos_L_SW HRX215 4.3_LN3448.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
023_HILIC_pos_L_QC14.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
024_HILIC_pos_L_SWC HRX 4.2_Vehicle.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
025_HILIC_pos_L_SW HRX215 4.2_LN3448.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
026_HILIC_pos_L_SWC HRX 4.3_Vehicle.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
027_HILIC_pos_L_QC15.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
028_HILIC_pos_L_SW HRX215 4.1_LN3448.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
029_HILIC_pos_L_SWC HRX 4.1_Vehicle.d
FILES
RAW_FILES
Liver_WT_Mouse
POS
030_HILIC_pos_L_QC16.d
FILES
RAW_FILES
Metabolite identification
NEG
016_HN_L_QC10_autoMSMS.d
FILES
RAW_FILES
Metabolite identification
NEG
017_HN_L_QC11_autoMSMS_exl_list.d
FILES
RAW_FILES
Metabolite identification
NEG
018_HN_L_QC12_autoMSMS_exl_list.d
FILES
RAW_FILES
Metabolite identification
NEG
062_HN_L_QC20_autoMSMS.d
FILES
RAW_FILES
Metabolite identification
NEG
063_HN_L_QC21_autoMSMS_exl_list.d
FILES
RAW_FILES
Metabolite identification
NEG
064_HN_L_QC22_autoMSMS_exl_list.d
FILES
RAW_FILES
Metabolite identification
NEG
08_HN_L_QC_autoMSMS_incl_list.d
FILES
RAW_FILES
Metabolite identification
POS
016_HP_L_QC10_autoMSMS.d
FILES
RAW_FILES
Metabolite identification
POS
017_HP_L_QC11_autoMSMS_exl_list.d
FILES
RAW_FILES
Metabolite identification
POS
018_HP_L_QC12_autoMSMS_exl_list.d
FILES
RAW_FILES
Metabolite identification
POS
02_HP_pure_substance_HRX215.d
FILES
RAW_FILES
Metabolite identification
POS
04_HP_L_QC_autoMSMS_incl_list.d
FILES
RAW_FILES
Metabolite identification
POS
04_HP_pure_substance_HRX215-glucuronide.d
FILES
RAW_FILES
Metabolite identification
POS
062_HP_L_QC20_autoMSMS.d
FILES
RAW_FILES
Metabolite identification
POS
063_HP_L_QC21_autoMSMS_exl_list.d
FILES
RAW_FILES
Metabolite identification
POS
064_HP_L_QC22_autoMSMS_exl_list.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
019_HN_P_QC13.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
020_HN_P_S22_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
021_HN_P_S5_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
022_HN_P_S14_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
023_HN_P_S11_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
024_HN_P_S36_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
025_HN_P_S29_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
026_HN_P_QC14.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
027_HN_P_S3_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
028_HN_P_S7_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
029_HN_P_S31_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
030_HN_P_S8_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
031_HN_P_S12_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
032_HN_P_S10_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
033_HN_P_QC15.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
034_HN_P_S15_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
035_HN_P_S35_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
036_HN_P_S18_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
037_HN_P_S32_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
038_HN_P_S6_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
039_HN_P_S9_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
040_HN_P_QC16.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
041_HN_P_S25_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
042_HN_P_S16_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
043_HN_P_S20_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
044_HN_P_S24_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
045_HN_P_S4_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
046_HN_P_S1_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
047_HN_P_QC17.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
048_HN_P_S21_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
049_HN_P_S34_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
050_HN_P_S27_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
051_HN_P_S2_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
052_HN_P_S28_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
053_HN_P_S26_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
054_HN_P_QC18.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
055_HN_P_S33_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
056_HN_P_S17_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
NEG
057_HN_P_QC19.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
019_HP_P_QC13.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
020_HP_P_S22_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
021_HP_P_S5_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
022_HP_P_S14_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
023_HP_P_S11_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
024_HP_P_S36_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
025_HP_P_S29_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
026_HP_P_QC14.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
027_HP_P_S3_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
028_HP_P_S7_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
029_HP_P_S31_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
030_HP_P_S8_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
031_HP_P_S12_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
032_HP_P_S10_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
033_HP_P_QC15.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
034_HP_P_S15_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
035_HP_P_S35_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
036_HP_P_S18_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
037_HP_P_S32_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
038_HP_P_S6_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
039_HP_P_S9_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
040_HP_P_QC16.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
041_HP_P_S25_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
042_HP_P_S16_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
043_HP_P_S20_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
044_HP_P_S24_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
045_HP_P_S4_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
046_HP_P_S1_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
047_HP_P_QC17.d
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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RAW_FILES
Plasma_NASH_Mouse
POS
048_HP_P_S21_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
049_HP_P_S34_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
050_HP_P_S27_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
051_HP_P_S2_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
052_HP_P_S28_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
053_HP_P_S26_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
054_HP_P_QC18.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
055_HP_P_S33_MKK.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
056_HP_P_S17_Vehicle.d
FILES
RAW_FILES
Plasma_NASH_Mouse
POS
057_HP_P_QC19.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
019_HILIC_neg_P_QC13.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
020_HILIC_neg_P_SW HRX215 4.1_LN3448.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
021_HILIC_neg_P_SWC HRX 4.2_Vehicle.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
022_HILIC_neg_P_SW HRX215 4.3_LN3448.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
023_HILIC_neg_P_QC14.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
024_HILIC_neg_P_SWC HRX 4.1_Vehicle.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
025_HILIC_neg_P_SW HRX215 4.2_LN3448.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
026_HILIC_neg_P_SW HRX215 4.4_LN3448.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
027_HILIC_neg_P_QC15.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
028_HILIC_neg_P_SWC HRX 4.4_Vehicle.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
029_HILIC_neg_P_SWC HRX 4.3_Vehicle.d
FILES
RAW_FILES
Plasma_WT_Mouse
NEG
030_HILIC_neg_P_QC16.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
019_HILIC_pos_P_QC13.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
020_HILIC_pos_P_SW HRX215 4.1_LN3448.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
021_HILIC_pos_P_SWC HRX 4.2_Vehicle.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
022_HILIC_pos_P_SW HRX215 4.3_LN3448.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
023_HILIC_pos_P_QC14.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
024_HILIC_pos_P_SWC HRX 4.1_Vehicle.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
025_HILIC_pos_P_SW HRX215 4.2_LN3448.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
026_HILIC_pos_P_SW HRX215 4.4_LN3448.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
027_HILIC_pos_P_QC15.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
028_HILIC_pos_P_SWC HRX 4.4_Vehicle.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
029_HILIC_pos_P_SWC HRX 4.3_Vehicle.d
FILES
RAW_FILES
Plasma_WT_Mouse
POS
030_HILIC_pos_P_QC16.d
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Group
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 2
Returning 226 rows!
Added 226 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9451
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 120: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
neg_QC1.raw
FILES
RAW_FILES
NEG
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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NEG
neg_T2C4.raw
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NEG
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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pos_T2C1.raw
FILES
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FILES
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FILES
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pos_T2C4.raw
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FILES
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FILES
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FILES
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FILES
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FILES
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pos_T2NS4.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1647/1674 [4:01:12<03:18,  7.35s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 98%|█████████▊| 1648/1674 [4:01:16<02:48,  6.47s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 99%|█████████▊| 1649/1674 [4:01:22<02:35,  6.23s/it]
 99%|█████████▊| 1650/1674 [4:01:24<01:56,  4.84s/it]
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 50 rows!
Added 50 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS96
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5975C MSD: missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
SBEP_Microbiome_001.CDF
FILES
SBEP_Microbiome_002.CDF
FILES
SBEP_Microbiome_003.CDF
FILES
SBEP_Microbiome_004.CDF
FILES
SBEP_Microbiome_005.CDF
FILES
SBEP_Microbiome_006.CDF
FILES
SBEP_Microbiome_007.CDF
FILES
SBEP_Microbiome_008.CDF
FILES
SBEP_Microbiome_009.CDF
FILES
SBEP_Microbiome_010.CDF
FILES
SBEP_Microbiome_011.CDF
FILES
SBEP_Microbiome_012.CDF
FILES
SBEP_Microbiome_013.CDF
FILES
SBEP_Microbiome_014.CDF
FILES
SBEP_Microbiome_015.CDF
FILES
SBEP_Microbiome_016.CDF
FILES
SBEP_Microbiome_017.CDF
FILES
SBEP_Microbiome_018.CDF
FILES
SBEP_Microbiome_019.CDF
FILES
SBEP_Microbiome_020.CDF
FILES
SBEP_Microbiome_021.CDF
FILES
SBEP_Microbiome_022.CDF
FILES
SBEP_Microbiome_023.CDF
FILES
SBEP_Microbiome_024.CDF
FILES
SBEP_Microbiome_025.CDF
FILES
SBEP_Microbiome_026.CDF
FILES
SBEP_Microbiome_027.CDF
FILES
SBEP_Microbiome_028.CDF
FILES
SBEP_Microbiome_029.CDF
FILES
SBEP_Microbiome_030.CDF
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Samples_Experimental Group
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  Samples_Infection
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Collection
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9673
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Orbitrap Exploris 120: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
neg_C1.raw
FILES
neg_C2.raw
FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
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FILES
pos_V6.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Samples_Vitamin C
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9677
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9794
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 99%|█████████▊| 1651/1674 [4:01:31<02:06,  5.52s/it]
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
HFX11_1721113_CN_QC1.raw
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FILES
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FILES
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POS
HFX11_1721113_CP_QC1.raw
FILES
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FILES
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FILES
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Number of rows removed due to not enough metadata: 0
Returning 98 rows!
Added 98 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS999
Request successful!
SampleCollectionMethod: ADDED!
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TermsofPosition: ADDED!
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MassSpectrometer:
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NEG_197_Fallacinol.mzXML
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NEG_198_Fragilin.mzXML
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NEG_203_Xanthorin.mzXML
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NEG_296_Mesoeryhthritol.mzXML
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NEG_303_Arabitol.mzXML
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NEG_305_Chloratranol.mzXML
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NEG_307_Divarinol.mzXML
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NEG_308_Haemoventosin.mzXML
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NEG_309_Leoidin.mzXML
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NEG_310_Methyl_Haematommate.mzXML
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NEG_312_Obtusatic_acid_7eV.mzXML
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NEG_313_Protolichesterinic_acid.mzXML
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NEG_314_Scensidin.mzXML
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NEG_315_Beta_Collatolic_acid.mzXML
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NEG_317_Mycosporine_glutaminol.mzXML
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NEG_318_Mycosporine_glutamicol.mzXML
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NEG_323_Buellin.mzXML
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NEG_324_Secalonic_acid_F.mzXML
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NEG_324_Secalonic_acid_F_40eV.mzXML
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NEG_325_Secalonic_acid_D_10eV.mzXML
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NEG_325_Secalonic_acid_D_25eV.mzXML
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NEG_325_Secalonic_acid_D_40eV.mzXML
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NEG_326_Isoskyrin_10eV.mzXML
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NEG_326_Isoskyrin_25eV.mzXML
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NEG_326_Isoskyrin_40eV.mzXML
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NEG_327_Secalonic_acid_B.mzXML
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NEG_327_Secalonic_acid_B_10eV.mzXML
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NEG_327_Secalonic_acid_B_25eV.mzXML
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NEG_327_Secalonic_acid_B_40eV.mzXML
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NEG_328_Hydroxyhaemoventosine.mzXML
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NEG_329_Methoxyhaemoventosin.mzXML
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NEG_329_Methoxyhaemoventosin_10eV.mzXML
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NEG_329_Methoxyhaemoventosin_25eV.mzXML
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NEG_329_Methoxyhaemoventosin_40eV.mzXML
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POS_007_12_Desoxydiacetylpyxinol.mzXML
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POS_007_12_Desoxydiacetylpyxinol_20eV.mzXML
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POS_007_12_Desoxydiacetylpyxinol_35eV.mzXML
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POS_007_12_Desoxydiacetylpyxinol_5eV.mzXML
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POS_015_2_8_Dimethyl_5_7_dimethoxychromon.mzXML
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POS_015_2_8_Dimethyl_5_7_dimethoxychromon_35eV.mzXML
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POS_015_2_8_Dimethyl_5_7_dimethoxychromon_5eV.mzXML
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POS_016_5_7_Dihydroxy_2_6_8_trimethylchromon.mzXML
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POS_016_5_7_Dihydroxy_2_6_8_trimethylchromon_35eV.mzXML
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POS_016_5_7_Dihydroxy_2_6_8_trimethylchromon_5eV.mzXML
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POS_021_Eugenitin.mzXML
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POS_021_Eugenitin_20eV.mzXML
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POS_021_Eugenitin_35eV.mzXML
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POS_021_Eugenitin_5eV.mzXML
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POS_022_Eugenitol.mzXML
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POS_022_Eugenitol_20eV.mzXML
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POS_022_Eugenitol_35eV.mzXML
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POS_022_Eugenitol_5eV.mzXML
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POS_023_Galapagin.mzXML
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POS_023_Galapagin_20eV.mzXML
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POS_023_Galapagin_35eV.mzXML
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POS_023_Galapagin_5eV.mzXML
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POS_024_Isoeugenitol.mzXML
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POS_024_Isoeugenitol_20eV.mzXML
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POS_024_Isoeugenitol_35eV.mzXML
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POS_024_Isoeugenitol_5eV.mzXML
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POS_026_Lobodirin.mzXML
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POS_026_Lobodirin_20eV.mzXML
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POS_026_Lobodirin_35eV.mzXML
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POS_026_Lobodirin_5eV.mzXML
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POS_027_2_4_Dichlor_1_3_6_tri_O_methylnorlichexanthon.mzXML
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POS_027_2_4_Dichlor_1_3_6_tri_O_methylnorlichexanthon_20eV.mzXML
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POS_027_2_4_Dichlor_1_3_6_tri_O_methylnorlichexanthon_35eV.mzXML
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POS_027_2_4_Dichlor_1_3_6_tri_O_methylnorlichexanthon_5eV.mzXML
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POS_029_Mollin.mzXML
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POS_029_Mollin_20eV.mzXML
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POS_029_Mollin_35eV.mzXML
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POS_029_Mollin_5eV.mzXML
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POS_030_Roccellin.mzXML
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POS_030_Roccellin_20eV.mzXML
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POS_030_Roccellin_35eV.mzXML
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POS_030_Roccellin_5eV.mzXML
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POS_032_2_5_Dichlor_1_3_6_tri_O_methylnorlichexanthon.mzXML
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POS_032_2_5_Dichlor_1_3_6_tri_O_methylnorlichexanthon_20eV.mzXML
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POS_032_2_5_Dichlor_1_3_6_tri_O_methylnorlichexanthon_35eV.mzXML
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POS_032_2_5_Dichlor_1_3_6_tri_O_methylnorlichexanthon_5eV.mzXML
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POS_033_Rupicolin.mzXML
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POS_033_Rupicolin_sordidone_20eV.mzXML
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POS_033_Rupicolin_sordidone_35eV.mzXML
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POS_033_Rupicolin_sordidone_5eV.mzXML
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POS_035_Acetyllobodirin.mzXML
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POS_035_Acetyllobodirin_20eV.mzXML
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POS_035_Acetyllobodirin_35eV.mzXML
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POS_035_Acetyllobodirin_5eV.mzXML
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POS_129_Isokauren.mzXML
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POS_129_Isokauren_20eV.mzXML
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POS_129_Isokauren_35eV.mzXML
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POS_129_Isokauren_5eV.mzXML
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POS_130_Kauren.mzXML
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POS_130_Kauren_20eV.mzXML
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POS_130_Kauren_35eV.mzXML
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POS_130_Kauren_5eV.mzXML
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POS_136_Diacetylpyxinol.mzXML
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POS_136_Diacetylpyxinol_20eV.mzXML
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POS_136_Diacetylpyxinol_35eV.mzXML
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POS_136_Diacetylpyxinol_5eV.mzXML
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POS_139_Olivetonide.mzXML
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POS_139_Olivetonide_20eV.mzXML
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POS_139_Olivetonide_35eV.mzXML
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POS_139_Olivetonide_5eV.mzXML
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POS_142_Glomellin.mzXML
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POS_142_Glomellin_20eV.mzXML
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POS_142_Glomellin_35eV.mzXML
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POS_142_Glomellin_5eV.mzXML
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POS_148_2_4_Di_O_methylolivetonide.mzXML
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POS_148_2_4_Di_O_methylolivetonide_20eV.mzXML
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POS_148_2_4_Di_O_methylolivetonide_35eV.mzXML
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POS_148_2_4_Di_O_methylolivetonide_5eV.mzXML
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POS_151_Simonyellin.mzXML
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POS_151_Simonyellin_20eV.mzXML
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POS_151_Simonyellin_35eV.mzXML
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POS_151_Simonyellin_5eV.mzXML
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POS_156_Aspicilin.mzXML
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POS_156_Aspicilin_20eV.mzXML
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POS_156_Aspicilin_35eV.mzXML
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POS_156_Aspicilin_5eV.mzXML
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POS_189_Haematommone.mzXML
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POS_189_Haematommone_20eV.mzXML
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POS_189_Haematommone_35eV.mzXML
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POS_189_Haematommone_5eV.mzXML
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POS_190_Chrysophanol.mzXML
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POS_190_Chrysophanol_20eV.mzXML
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POS_190_Chrysophanol_35eV.mzXML
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POS_190_Chrysophanol_5eV.mzXML
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POS_191_Citreorosein.mzXML
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POS_191_Citreorosein_20eV.mzXML
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POS_191_Citreorosein_35eV.mzXML
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POS_191_Citreorosein_5eV.mzXML
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POS_192_Emodic_acid.mzXML
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POS_192_Emodic_acid_20eV.mzXML
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POS_192_Emodic_acid_35eV.mzXML
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POS_192_Emodic_acid_5eV.mzXML
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POS_193_Emodin.mzXML
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POS_193_Emodin_20eV.mzXML
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POS_193_Emodin_35eV.mzXML
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POS_193_Emodin_5eV.mzXML
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POS_194_Endocrocin.mzXML
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POS_194_Endocrocin_20eV.mzXML
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POS_194_Endocrocin_35eV.mzXML
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POS_194_Endocrocin_5eV.mzXML
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POS_196_Fallacinal.mzXML
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POS_196_Fallacinal_20eV.mzXML
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POS_196_Fallacinal_35eV.mzXML
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POS_196_Fallacinal_5eV.mzXML
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POS_197_Fallacinol.mzXML
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POS_197_Fallacinol_Teloschistin_20eV.mzXML
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POS_197_Fallacinol_Teloschistin_35eV.mzXML
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POS_197_Fallacinol_Teloschistin_5eV.mzXML
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POS_198_Fragilin.mzXML
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POS_198_Fragilin_20eV.mzXML
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POS_198_Fragilin_35eV.mzXML
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POS_198_Fragilin_5eV.mzXML
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POS_199_Parietin.mzXML
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POS_199_Parietin_20eV.mzXML
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POS_199_Parietin_35eV.mzXML
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POS_199_Parietin_5eV.mzXML
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POS_200_Parietinic_acid.mzXML
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POS_200_Parietinic_acid_20eV.mzXML
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POS_200_Parietinic_acid_35eV.mzXML
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POS_200_Parietinic_acid_5eV.mzXML
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POS_201_Rugulosin.mzXML
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POS_201_Rugulosin_5eV.mzXML
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POS_202_Skyrin.mzXML
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POS_202_Skyrin_20eV.mzXML
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POS_202_Skyrin_35eV.mzXML
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POS_202_Skyrin_5eV.mzXML
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POS_203_Xanthorin.mzXML
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POS_203_Xanthorin_20eV.mzXML
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POS_203_Xanthorin_35eV.mzXML
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POS_204_Solorinic_acid.mzXML
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POS_204_Solorinic_acid_5eV.mzXML
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POS_205_Canarione.mzXML
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POS_205_Canarione_20eV.mzXML
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POS_205_Canarione_35eV.mzXML
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POS_205_Canarione_5eV.mzXML
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POS_206_Canarione_dimethylether_ADDED_20eV.mzXML
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POS_206_Canarione_dimethylether_ADDED_35eV.mzXML
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POS_206_Canarione_dimethylether_ADDED_5eV.mzXML
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POS_207_Chiodectonic_acid.mzXML
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POS_212_Thelephoric_acid_35eV.mzXML
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POS_213_Polyporic_acid.mzXML
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POS_273_4_Chloronorlichexanthone_5eV.mzXML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

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POS_274_7_Chlornorlichexanthone.mzXML
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POS_274_7_Chlornorlichexanthone_20eV.mzXML
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POS_290_2_5_Dichlorolichexanthone.mzXML
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POS_292_Lichexanthone.mzXML
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POS_292_Lichexanthone_20eV.mzXML
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POS_292_Lichexanthone_5eV.mzXML
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POS_324_Secalonic_acid_F.mzXML
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POS_325_Secalonic_acid_D_5eV.mzXML
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Number of rows removed due to not enough metadata: 1314
Returning 0 rows!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS833
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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Method 4/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
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IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer
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IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
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IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
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IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
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IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
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IGNORED:  Assay_Mass analyzer
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IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
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IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 252 rows!
Added 252 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS100
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9795
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

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RAW_FILES
POS
HFX12_CP1_FZTM220336819-1A.raw
FILES
RAW_FILES
POS
HFX12_CP1_FZTM220336819-2A.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_age
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 96 rows!
Added 96 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10000
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
YearOfAnalysis:
  1970: missing value
MassSpectrometer:
  AB SCIEX TripleTOF 6600: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
NEG
IWHF1_NEG.wiff
FILES
RAW_FILES
NEG
IWHF2_NEG.wiff
FILES
RAW_FILES
NEG
IWHF3_NEG.wiff
FILES
RAW_FILES
NEG
IWHM1_NEG.wiff
FILES
RAW_FILES
NEG
IWHM2_NEG.wiff
FILES
RAW_FILES
NEG
IWHM3_NEG.wiff
FILES
RAW_FILES
NEG
IWLF1_NEG.wiff
FILES
RAW_FILES
NEG
IWLF2_NEG.wiff
FILES
RAW_FILES
NEG
IWLF3_NEG.wiff
FILES
RAW_FILES
NEG
IWLM1_NEG.wiff
FILES
RAW_FILES
NEG
IWLM2_NEG.wiff
FILES
RAW_FILES
NEG
IWLM3_NEG.wiff
FILES
RAW_FILES
POS
IWHF1_POS.wiff
FILES
RAW_FILES
POS
IWHF2_POS.wiff
FILES
RAW_FILES
POS
IWHF3_POS.wiff
FILES
RAW_FILES
POS
IWHM1_POS.wiff
FILES
RAW_FILES
POS
IWHM2_POS.wiff
FILES
RAW_FILES
POS
IWHM3_POS.wiff
FILES
RAW_FILES
POS
IWLF1_POS.wiff
FILES
RAW_FILES
POS
IWLF2_POS.wiff
FILES
RAW_FILES
POS
IWLF3_POS.wiff
FILES
RAW_FILES
POS
IWLM1_POS.wiff
FILES
RAW_FILES
POS
IWLM2_POS.wiff
FILES
RAW_FILES
POS
IWLM3_POS.wiff
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Group
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Raw Spectral Data File.1
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10757
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
HF-2_CN4_FZTM230034332-1A.raw
FILES
HF-2_CN4_FZTM230034333-1A.raw
FILES
HF-2_CN4_FZTM230034334-1A.raw
FILES
HF-2_CN4_FZTM230034335-1A.raw
FILES
HF-2_CN4_FZTM230034336-1A.raw
FILES
HF-2_CN5_FZTM230034338-1A.raw
FILES
HF-2_CN5_FZTM230034339-1A.raw
FILES
HF-2_CN5_FZTM230034340-1A.raw
FILES
HF-2_CN5_FZTM230034341-1A.raw
FILES
HF-2_CN5_FZTM230034342-1A.raw
FILES
HF-2_CN5_FZTM230034343-1A.raw
FILES
HF-2_CN7_FZTM230034350-1A.raw
FILES
HF-2_CN7_FZTM230034351-1A.raw
FILES
HF-2_CN7_FZTM230034352-1A.raw
FILES
HF-2_CN7_FZTM230034353-1A.raw/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)
/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:188: PerformanceWarning: DataFrame is highly fragmented.  This is usually the result of calling `frame.insert` many times, which has poor performance.  Consider joining all columns at once using pd.concat(axis=1) instead. To get a de-fragmented frame, use `newframe = frame.copy()`
  df['USI'] = 'mzspec:' + df['MassiveID'] + ':' + df['filename']

 99%|█████████▉| 1657/1674 [4:02:37<02:15,  7.99s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 99%|█████████▉| 1658/1674 [4:02:52<02:42, 10.18s/it]
 99%|█████████▉| 1659/1674 [4:02:57<02:12,  8.81s/it]
FILES
HF-2_CN7_FZTM230034354-1A.raw
FILES
HF-2_CN7_FZTM230034355-1A.raw
FILES
HF-2_CN8_FZTM230034356-1A.raw
FILES
HF-2_CN8_FZTM230034357-1A.raw
FILES
HF-2_CN8_FZTM230034358-1A.raw
FILES
HF-2_CN8_FZTM230034359-1A.raw
FILES
HF-2_CN8_FZTM230034360-1A.raw
FILES
HF-2_CN8_FZTM230034361-1A.raw
FILES
HF-2_CP4_FZTM230034332-1A.raw
FILES
HF-2_CP4_FZTM230034333-1A.raw
FILES
HF-2_CP4_FZTM230034334-1A.raw
FILES
HF-2_CP4_FZTM230034335-1A.raw
FILES
HF-2_CP4_FZTM230034336-1A.raw
FILES
HF-2_CP4_FZTM230034337-1A.raw
FILES
HF-2_CP5_FZTM230034338-1A.raw
FILES
HF-2_CP5_FZTM230034340-1A.raw
FILES
HF-2_CP5_FZTM230034341-1A.raw
FILES
HF-2_CP5_FZTM230034342-1A.raw
FILES
HF-2_CP5_FZTM230034343-1A.raw
FILES
HF-2_CP7_FZTM230034350-1A.raw
FILES
HF-2_CP7_FZTM230034351-1A.raw
FILES
HF-2_CP7_FZTM230034352-1A.raw
FILES
HF-2_CP7_FZTM230034353-1A.raw
FILES
HF-2_CP7_FZTM230034354-1A.raw
FILES
HF-2_CP7_FZTM230034355-1A.raw
FILES
HF-2_CP8_FZTM230034356-1A.raw
FILES
HF-2_CP8_FZTM230034357-1A.raw
FILES
HF-2_CP8_FZTM230034358-1A.raw
FILES
HF-2_CP8_FZTM230034359-1A.raw
FILES
HF-2_CP8_FZTM230034360-1A.raw
FILES
HF-2_CP8_FZTM230034361-1A.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 1
Returning 45 rows!
Added 45 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS11080
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive HF-X: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
HF1_2339044_CN_QC1.mzML
FILES
HF1_2339044_CN_QC2.mzML
FILES
HF1_2339044_CN_QC3.mzML
FILES
HF1_2339044_CP_QC1.mzML
FILES
HF1_2339044_CP_QC2.mzML
FILES
HF1_2339044_CP_QC3.mzML
FILES
HF1_CN10_FZTM240048193-1A.mzML
FILES
HF1_CN11_FZTM240048194-1A.mzML
FILES
HF1_CN12_FZTM240048195-1A.mzML
FILES
HF1_CN1_FZTM240048184-1A.mzML
FILES
HF1_CN2_FZTM240048185-1A.mzML
FILES
HF1_CN3_FZTM240048186-1A.mzML
FILES
HF1_CN4_FZTM240048187-1A.mzML
FILES
HF1_CN5_FZTM240048188-1A.mzML
FILES
HF1_CN6_FZTM240048189-1A.mzML
FILES
HF1_CN8_FZTM240048191-1A.mzML
FILES
HF1_CN9_FZTM240048192-1A.mzML
FILES
HF1_CP10_FZTM240048193-1A.mzML
FILES
HF1_CP11_FZTM240048194-1A.mzML
FILES
HF1_CP12_FZTM240048195-1A.mzML
FILES
HF1_CP1_FZTM240048184-1A.mzML
FILES
HF1_CP2_FZTM240048185-1A.mzML
FILES
HF1_CP3_FZTM240048186-1A.mzML
FILES
HF1_CP4_FZTM240048187-1A.mzML
FILES
HF1_CP5_FZTM240048188-1A.mzML
FILES
HF1_CP6_FZTM240048189-1A.mzML
FILES
HF1_CP8_FZTM240048191-1A.mzML
FILES
HF1_CP9_FZTM240048192-1A.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Source REF
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Label
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 28 rows!
Added 28 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS113
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS125
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific LTQ Orbitrap: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
Mouse 01 blood control oral NEG.mzML
FILES
Mouse 01 blood control oral POS.mzML
FILES
Mouse 01 dorsal skin control oral NEG.mzML
FILES
Mouse 01 dorsal skin control oral POS.mzML
FILES
Mouse 01 leg muscle control oral NEG.mzML
FILES
Mouse 01 leg muscle control oral POS.mzML
FILES
Mouse 01 leg skin control oral NEG.mzML
FILES
Mouse 01 leg skin control oral POS.mzML
FILES
Mouse 01 liver control oral NEG.mzML
FILES/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 99%|█████████▉| 1660/1674 [4:03:04<01:55,  8.23s/it]
Mouse 01 liver control oral POS.mzML
FILES
Mouse 02 blood control oral NEG.mzML
FILES
Mouse 02 blood control oral POS.mzML
FILES
Mouse 02 dorsal skin control oral NEG.mzML
FILES
Mouse 02 dorsal skin control oral POS.mzML
FILES
Mouse 02 leg muscle control oral NEG.mzML
FILES
Mouse 02 leg muscle control oral POS.mzML
FILES
Mouse 02 leg skin control oral NEG.mzML
FILES
Mouse 02 leg skin control oral POS.mzML
FILES
Mouse 02 liver control oral NEG.mzML
FILES
Mouse 02 liver control oral POS.mzML
FILES
Mouse 03 blood control oral NEG.mzML
FILES
Mouse 03 blood control oral POS.mzML
FILES
Mouse 03 dorsal skin control oral NEG.mzML
FILES
Mouse 03 dorsal skin control oral POS.mzML
FILES
Mouse 03 leg muscle control oral NEG.mzML
FILES
Mouse 03 leg muscle control oral POS.mzML
FILES
Mouse 03 leg skin control oral NEG.mzML
FILES
Mouse 03 leg skin control oral POS.mzML
FILES
Mouse 03 liver control oral NEG.mzML
FILES
Mouse 03 liver control oral POS.mzML
FILES
Mouse 04 blood RESV oral NEG.mzML
FILES
Mouse 04 blood RESV oral POS.mzML
FILES
Mouse 04 dorsal skin RESV oral NEG.mzML
FILES
Mouse 04 dorsal skin RESV oral POS.mzML
FILES
Mouse 04 leg muscle RESV oral NEG.mzML
FILES
Mouse 04 leg muscle RESV oral POS.mzML
FILES
Mouse 04 leg skin RESV oral NEG.mzML
FILES
Mouse 04 leg skin RESV oral POS.mzML
FILES
Mouse 04 liver RESV oral NEG.mzML
FILES
Mouse 04 liver RESV oral POS.mzML
FILES
Mouse 05 blood RESV oral NEG.mzML
FILES
Mouse 05 blood RESV oral POS.mzML
FILES
Mouse 05 dorsal skin RESV oral NEG.mzML
FILES
Mouse 05 dorsal skin RESV oral POS.mzML
FILES
Mouse 05 leg muscle RESV oral NEG.mzML
FILES
Mouse 05 leg muscle RESV oral POS.mzML
FILES
Mouse 05 leg skin RESV oral NEG.mzML
FILES
Mouse 05 leg skin RESV oral POS.mzML
FILES
Mouse 05 liver RESV oral NEG.mzML
FILES
Mouse 05 liver RESV oral POS.mzML
FILES
Mouse 06 blood RESV oral NEG.mzML
FILES
Mouse 06 blood RESV oral POS.mzML
FILES
Mouse 06 dorsal skin RESV oral NEG.mzML
FILES
Mouse 06 dorsal skin RESV oral POS.mzML
FILES
Mouse 06 leg muscle RESV oral NEG.mzML
FILES
Mouse 06 leg muscle RESV oral POS.mzML
FILES
Mouse 06 leg skin RESV oral NEG.mzML
FILES
Mouse 06 leg skin RESV oral POS.mzML
FILES
Mouse 06 liver RESV oral NEG.mzML
FILES
Mouse 06 liver RESV oral POS.mzML
FILES
Mouse 07 blood control skin NEG.mzML
FILES
Mouse 07 blood control skin POS.mzML
FILES
Mouse 07 dorsal skin control skin NEG.mzML
FILES
Mouse 07 dorsal skin control skin POS.mzML
FILES
Mouse 07 leg muscle control skin NEG.mzML
FILES
Mouse 07 leg muscle control skin POS.mzML
FILES
Mouse 07 leg skin control skin NEG.mzML
FILES
Mouse 07 leg skin control skin POS.mzML
FILES
Mouse 07 liver control skin NEG.mzML
FILES
Mouse 07 liver control skin POS.mzML
FILES
Mouse 08 blood control skin NEG.mzML
FILES
Mouse 08 blood control skin POS.mzML
FILES
Mouse 08 dorsal skin control skin NEG.mzML
FILES
Mouse 08 dorsal skin control skin POS.mzML
FILES
Mouse 08 leg muscle control skin NEG.mzML
FILES
Mouse 08 leg muscle control skin POS.mzML
FILES
Mouse 08 leg skin control skin NEG.mzML
FILES
Mouse 08 leg skin control skin POS.mzML
FILES
Mouse 08 liver control skin NEG.mzML
FILES
Mouse 08 liver control skin POS.mzML
FILES
Mouse 09 blood control skin NEG.mzML
FILES
Mouse 09 blood control skin POS.mzML
FILES
Mouse 09 dorsal skin control skin NEG.mzML
FILES
Mouse 09 dorsal skin control skin POS.mzML
FILES
Mouse 09 leg muscle control skin NEG.mzML
FILES
Mouse 09 leg muscle control skin POS.mzML
FILES
Mouse 09 leg skin control skin NEG.mzML
FILES
Mouse 09 leg skin control skin POS.mzML
FILES
Mouse 09 liver control skin NEG.mzML
FILES
Mouse 09 liver control skin POS.mzML
FILES
Mouse 10 blood RESV skin NEG.mzML
FILES
Mouse 10 blood RESV skin POS.mzML
FILES
Mouse 10 dorsal skin RESV skin NEG.mzML
FILES
Mouse 10 dorsal skin RESV skin POS.mzML
FILES
Mouse 10 leg muscle RESV skin NEG.mzML
FILES
Mouse 10 leg muscle RESV skin POS.mzML
FILES
Mouse 10 leg skin RESV skin NEG.mzML
FILES
Mouse 10 leg skin RESV skin POS.mzML
FILES
Mouse 10 liver RESV skin NEG.mzML
FILES
Mouse 10 liver RESV skin POS.mzML
FILES
Mouse 11 blood RESV skin NEG.mzML
FILES
Mouse 11 blood RESV skin POS.mzML
FILES
Mouse 11 dorsal skin RESV skin NEG.mzML
FILES
Mouse 11 dorsal skin RESV skin POS.mzML
FILES
Mouse 11 leg muscle RESV skin NEG.mzML
FILES
Mouse 11 leg muscle RESV skin POS.mzML
FILES
Mouse 11 leg skin RESV skin NEG.mzML
FILES
Mouse 11 leg skin RESV skin POS.mzML
FILES
Mouse 11 liver RESV skin NEG.mzML
FILES
Mouse 11 liver RESV skin POS.mzML
FILES
Mouse 12 blood RESV skin NEG.mzML
FILES
Mouse 12 blood RESV skin POS.mzML
FILES
Mouse 12 dorsal skin RESV skin NEG.mzML
FILES
Mouse 12 dorsal skin RESV skin POS.mzML
FILES
Mouse 12 leg muscle RESV skin NEG.mzML
FILES
Mouse 12 leg muscle RESV skin POS.mzML
FILES
Mouse 12 leg skin RESV skin NEG.mzML
FILES
Mouse 12 leg skin RESV skin POS.mzML
FILES
Mouse 12 liver RESV skin NEG.mzML
FILES
Mouse 12 liver RESV skin POS.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Samples_Tissue
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 120 rows!
Added 120 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS128
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
NCBITaxonomy:
  : missing value
MassSpectrometer:
  Bruker micrOTOF-Q II: missing value
UBERONBodyPartName:
  : missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
ATCC13032_1_177_01_4681.cdf
FILES
ATCC13032_2_182_01_4686.cdf
FILES
ATCC13032_3_183_01_4687.cdf
FILES
ATCC13032_4_180_01_4684.cdf
FILES
ATCC21831_1_179_01_4683.cdf
FILES
ATCC21831_2_181_01_4685.cdf
FILES
ATCC21831_3_178_01_4682.cdf
FILES
ATCC21831_4_184_01_4688.cdf
FILES
IS_1_185_01_4691.cdf
FILES
IS_2_186_01_4692.cdf
FILES
IS_3_187_01_4693.cdf
FILES
IS_4_188_01_4694.cdf
FILES
blank_151_01_4689.cdf
FILES
blank_151_02_4679.cdf
FILES
blank_151_02_4690.cdf
FILES
blank_151_02_4696.cdf/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

 99%|█████████▉| 1661/1674 [4:03:10<01:38,  7.54s/it]
 99%|█████████▉| 1662/1674 [4:03:12<01:07,  5.65s/it]
 99%|█████████▉| 1663/1674 [4:03:13<00:48,  4.39s/it]
 99%|█████████▉| 1664/1674 [4:03:18<00:46,  4.70s/it]
 99%|█████████▉| 1665/1674 [4:03:21<00:37,  4.15s/it]
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_replicate
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_strain
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 16 rows!
Added 16 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS134
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1437
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS156
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS177
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS186
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_04.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_05.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_07.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_08.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_12.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_13.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_17.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_20.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_21.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_25.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_26.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_28.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_29.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_30.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_31.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_35.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_38.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_39.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_40.mzML
FILES
QXA01PDNEG20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_42.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_04.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_05.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_07.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_08.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_12.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_13.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_17.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_20.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_21.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_25.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_26.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_28.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_29.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_30.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_31.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_35.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_38.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_39.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_40.mzML
FILES
QXA02PDPOSEAR20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_42.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_04.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_05.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_07.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_08.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_12.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_13.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_17.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_20.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_21.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_25.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_26.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_28.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_29.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_30.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_31.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_35.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_38.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_39.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_40.mzML
FILES
QXA02PDPOSLAT20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_42.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_04.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_05.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_07.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_08.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_12.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_13.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_17.mzML/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

100%|█████████▉| 1666/1674 [4:04:16<02:34, 19.26s/it]
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_20.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_21.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_25.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_26.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_28.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_29.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_30.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_31.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_35.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_38.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_39.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_40.mzML
FILES
QXA03PDPOL20181220_FREI0518VWSS000000139CELLS_HUMAN_CELLS1_42.mzML
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
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IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
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IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
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IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
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IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Samples_Treatment
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Samples_Genotype
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
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IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
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IGNORED:  Assay_Term Source REF.5
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IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 80 rows!
Added 80 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS6000
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Agilent 5973 MSD: missing value
IonizationSourceAndPolarity:
  electron ionization (positive): missing value
ChromatographyAndPhase:
  : missing value
ENVOEnvironmentBiome:
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ENVOEnvironmentMaterial:
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FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Autosampler model
IGNORED:  Samples_Peripheral glucose level
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

100%|█████████▉| 1667/1674 [4:04:20<01:43, 14.82s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

100%|█████████▉| 1668/1674 [4:04:25<01:11, 11.86s/it]
100%|█████████▉| 1669/1674 [4:04:32<00:52, 10.45s/it]
100%|█████████▉| 1670/1674 [4:04:34<00:31,  7.89s/it]
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 24 rows!
Added 24 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7565
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
ChromatographyAndPhase: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive: missing value
IonizationSourceAndPolarity:
   (positive): missing value
   (negative): missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
RAW_FILES
01_two organoids_POS_fig_2.RAW
FILES
RAW_FILES
02_two organoids_NEG_fig_3&S1.RAW
FILES
RAW_FILES
03_rosette_POS_fig_4&5.RAW
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RAW_FILES
04_rosette_NEG_fig_4&5.RAW
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RAW_FILES
05_water embedding_NEG_fig_S1.RAW
FILES
RAW_FILES
06_porcine gelatine embedding_NEG_fig_S1.RAW
IGNORED:  Assay_Term Source REF.1
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IGNORED:  Samples_Term Source REF.3
IGNORED:  base
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IGNORED:  Samples_Sample Name
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IGNORED:  Assay_Max count of pixel y
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
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IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
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IGNORED:  Assay_Max count of pixel x
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IGNORED:  Assay_Term Source REF.4
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IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Instrument software version
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Section thickness
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Embedding
IGNORED:  Assay_Matrix
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Pixel size y
IGNORED:  Assay_Solvent
IGNORED:  Assay_Spectrum representation
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IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Sample mounting
IGNORED:  Assay_Unit.4
IGNORED:  Assay_Term Source REF
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IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Spatial resolution
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
Number of rows removed due to not enough metadata: 0
Returning 6 rows!
Added 6 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS7972
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS9131
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS2721
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Thermo Scientific Q Exactive Plus: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
A1_neg.raw
FILES
A1_pos.raw
FILES
A2_neg.raw
FILES
A2_pos.raw
FILES
A3_neg.raw
FILES
A3_pos.raw
FILES
A4_neg.raw
FILES
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A5_neg.raw
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C2_neg.raw
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C3_neg.raw
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D2_neg.raw
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QC1_neg.raw
FILES
QC1_pos.raw
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QC2_neg.raw
FILES
QC2_pos.raw
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QC3_neg.raw
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QC3_pos.raw
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QC4_neg.raw
FILES
QC4_pos.raw
FILES
QC5_neg.raw
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QC5_pos.raw
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QC6_neg.raw
FILES
QC6_pos.raw
IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
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IGNORED:  Samples_Drug
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.2
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IGNORED:  Samples_Variant
IGNORED:  Samples_Concentration
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Protocol REF
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Samples_Dosage Regimen
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Term Source REF.7
IGNORED:  extension
IGNORED:  Is Organ
IGNORED:  Samples_Replicate
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

100%|█████████▉| 1671/1674 [4:04:40<00:21,  7.29s/it]
100%|█████████▉| 1672/1674 [4:04:44<00:12,  6.13s/it]/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

100%|█████████▉| 1673/1674 [4:04:49<00:05,  5.78s/it]
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Samples_Term Accession Number.7
IGNORED:  Assay_Autosampler model
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 60 rows!
Added 60 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS1
Request successful!
Added 0 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS10
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Bruker micrOTOF: missing value
IonizationSourceAndPolarity:
  electrospray ionization: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
FILES
02sa00l00h1a1_27_01_5561.cdf
FILES
02sa00l00h1b1_28_01_5562.cdf
FILES
02sa00l00h1c1_29_01_5563.cdf
FILES
02sa00l00h1d1_30_01_5564.cdf
FILES
02sa00l00h1e1_31_01_5567.cdf
FILES
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Samples_Treatment
IGNORED:  Samples_Unit
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Assay_Sample Name
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Is Multicellular
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Samples_Organism part
IGNORED:  Assay_Protocol REF.2
IGNORED:  Samples_Variant
IGNORED:  Assay_Protocol REF
IGNORED:  Samples_Organism
IGNORED:  Is Fluid
IGNORED:  keep
IGNORED:  Samples_Term Source REF.3
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  base
IGNORED:  Samples_Term Source REF.5
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Source REF
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Post Extraction
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Sample type
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Guard column
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Label
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Ion source
IGNORED:  Assay_Data Transformation Name
IGNORED:  Samples_Term Source REF.4
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
Number of rows removed due to not enough metadata: 0
Returning 30 rows!
Added 30 samples.
Requested: https://www.ebi.ac.uk:443/metabolights/ws/studies/public/study/MTBLS201
Request successful!
SampleCollectionMethod: ADDED!
SampleExtractionMethod: ADDED!
InternalStandardsUsed: ADDED!
SubjectIdentifierAsRecorded: ADDED!
BiologicalSex: ADDED!
TermsofPosition: ADDED!
HealthStatus: ADDED!
DOIDCommonName: ADDED!
ComorbidityListDOIDIndex: ADDED!
SampleCollectionDateandTime: ADDED!
Country: ADDED!
HumanPopulationDensity: ADDED!
LatitudeandLongitude: ADDED!
DepthorAltitudeMeters: ADDED!
qiita_sample_name: ADDED!
MassSpectrometer:
  Q Exactive: missing value
ENVOEnvironmentBiome:
  nan: missing value
ENVOEnvironmentMaterial:
  nan: missing value
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IGNORED:  Assay_Term Source REF.1
IGNORED:  Assay_Term Accession Number.14
IGNORED:  Samples_Term Accession Number.2
IGNORED:  Is Multicellular
IGNORED:  Samples_Organism part
IGNORED:  Samples_Term Source REF.6
IGNORED:  Samples_Organism
IGNORED:  Assay_Term Source REF.8
IGNORED:  Assay_Term Accession Number.11
IGNORED:  Assay_Term Source REF.9
IGNORED:  Assay_Number of scans
IGNORED:  Assay_Term Accession Number
IGNORED:  Assay_Protocol REF.1
IGNORED:  Assay_Metabolite Assignment File
IGNORED:  Assay_Chromatography Instrument
IGNORED:  Assay_Term Accession Number.6
IGNORED:  Assay_Term Source REF.2
IGNORED:  Assay_Data Transformation Name.1
IGNORED:  Samples_Term Accession Number.5
IGNORED:  Assay_Native spectrum identifier format
IGNORED:  Assay_Term Source REF.16
IGNORED:  Assay_Inlet type
IGNORED:  Samples_Protocol REF
IGNORED:  Assay_Term Accession Number.9
IGNORED:  Assay_Instrument manufacturer/app/workflows/PublicDataset_ReDU_Metadata_Workflow/bin/read_and_validate_redu_from_github.py:30: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  uberon_ontology_table['Label'] = uberon_ontology_table['Label'].astype(str)

100%|██████████| 1674/1674 [4:05:02<00:00,  8.04s/it]
100%|██████████| 1674/1674 [4:05:02<00:00,  8.78s/it]

IGNORED:  Assay_Term Accession Number.3
IGNORED:  Assay_Term Source REF.3
IGNORED:  Samples_Term Source REF
IGNORED:  Assay_Term Accession Number.12
IGNORED:  Samples_Term Accession Number.6
IGNORED:  Assay_Scan polarity
IGNORED:  Assay_Term Source REF.11
IGNORED:  Assay_Term Source REF.10
IGNORED:  Is Fluid
IGNORED:  Assay_Time range
IGNORED:  Samples_Term Source REF.3
IGNORED:  base
IGNORED:  Assay_Instrument serial number
IGNORED:  Samples_Term Source REF.5
IGNORED:  Samples_Sample Name
IGNORED:  Assay_Derivatization
IGNORED:  Assay_Term Accession Number.15
IGNORED:  Samples_Term Accession Number.3
IGNORED:  Assay_Post Extraction
IGNORED:  Assay_Normalization Name
IGNORED:  Assay_Protocol REF.3
IGNORED:  Samples_Term Accession Number.1
IGNORED:  Assay_Detector
IGNORED:  Assay_Unit.1
IGNORED:  Assay_MS Assay Name
IGNORED:  Assay_Term Source REF.12
IGNORED:  Assay_Term Accession Number.19
IGNORED:  Assay_Labeled Extract Name
IGNORED:  Assay_Term Accession Number.8
IGNORED:  Assay_Detector mode
IGNORED:  Assay_Sample Name
IGNORED:  Assay_Term Accession Number.5
IGNORED:  Assay_Term Accession Number.10
IGNORED:  Assay_Term Accession Number.2
IGNORED:  Assay_Protocol REF.2
IGNORED:  Assay_Protocol REF
IGNORED:  Assay_Term Source REF.20
IGNORED:  keep
IGNORED:  Assay_Term Accession Number.20
IGNORED:  Assay_Term Source REF.18
IGNORED:  Assay_Term Accession Number.13
IGNORED:  extension
IGNORED:  Samples_Timepoint
IGNORED:  Is Organ
IGNORED:  Assay_Term Source REF.7
IGNORED:  Assay_Term Accession Number.18
IGNORED:  Samples_Specimen collection process
IGNORED:  Assay_Term Source REF.4
IGNORED:  Assay_Column model
IGNORED:  Assay_Term Accession Number.1
IGNORED:  Assay_Mass analyzer
IGNORED:  Assay_Term Accession Number.16
IGNORED:  Assay_Data file checksum type
IGNORED:  Assay_Instrument software
IGNORED:  Assay_Term Source REF.17
IGNORED:  Assay_Term Source REF.13
IGNORED:  Assay_Data Transformation Name
IGNORED:  Assay_Protocol REF.4
IGNORED:  row_id
IGNORED:  Assay_Unit
IGNORED:  Assay_Data file content
IGNORED:  Samples_Subject ID
IGNORED:  Samples_Term Accession Number.4
IGNORED:  Samples_Source Name
IGNORED:  Assay_Term Accession Number.4
IGNORED:  Samples_Variant
IGNORED:  Assay_Data Transformation software version
IGNORED:  Assay_Spectrum representation
IGNORED:  Assay_Term Source REF.15
IGNORED:  filename_lower
IGNORED:  Assay_Column type
IGNORED:  Assay_Data Transformation software
IGNORED:  Assay_Term Source REF
IGNORED:  Assay_Scan m/z range
IGNORED:  Is Descendant
IGNORED:  Samples_Term Source REF.1
IGNORED:  Assay_Extract Name
IGNORED:  Samples_Sample type
IGNORED:  Assay_Term Accession Number.17
IGNORED:  filepath
IGNORED:  Assay_Term Source REF.5
IGNORED:  Assay_Label
IGNORED:  Samples_Term Source REF.2
IGNORED:  Samples_Term Accession Number
IGNORED:  Assay_Term Source REF.14
IGNORED:  Assay_Term Accession Number.7
IGNORED:  Assay_Raw data file format
IGNORED:  Assay_Ion source
IGNORED:  Samples_Term Source REF.4
IGNORED:  Assay_Term Source REF.19
IGNORED:  Assay_Term Source REF.6
Number of rows removed due to not enough metadata: 0
Returning 256 rows!
Added 256 samples.
Output of 265791 samples has been saved to Metabolights2REDU_ALL.tsv!