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2a605ec
Update Collection schema definition
Bankso Dec 13, 2024
074c563
Remove redundant GeoMx Level 1 attributes
Bankso Dec 13, 2024
12aaf5d
Remove redundant GeoMx Level 2 attributes
Bankso Dec 13, 2024
020770a
Remove redundant GeoMx Level 3 attributes
Bankso Dec 13, 2024
ad006d5
Add coverage to Sequencing Level 1 schema def
Bankso Dec 13, 2024
c018e12
Remove redundant coverage attribute from Sequencing Level 2
Bankso Dec 13, 2024
c07f61d
Add Sequencing Level 3 attributes to capture workflow
Bankso Dec 13, 2024
6b94045
Define Collection model
Bankso Dec 13, 2024
dd0e9c4
Add GrantView Key to Dataset View
Bankso Dec 13, 2024
fa49c74
Add GrantView Key to Educational Resource
Bankso Dec 13, 2024
0cb5184
Add GrantView Key to Publication View
Bankso Dec 13, 2024
7de7915
Add GrantView Key to DataDSP
Bankso Dec 13, 2024
3183e7f
Add GrantView Key to Tool View
Bankso Dec 13, 2024
dfdbd3e
Update annotationProperty.csv
Bankso Dec 18, 2024
9c827b7
Update processLevel.csv
Bankso Dec 18, 2024
1294689
Update annotationProperty.csv
Bankso Dec 18, 2024
8946550
make and schema convert
Bankso Dec 18, 2024
c17e23f
Update all_valid_values.csv
Bankso Dec 18, 2024
e477f5b
Update release_workflow.sh
Bankso Jan 9, 2025
4e8d934
Update annotationProperty.csv
Bankso Jan 9, 2025
4b6152d
Collate CSV and convert to JSON-LD
Bankso Jan 9, 2025
1633490
Update annotationProperty.csv
Bankso Jan 16, 2025
2a7643b
Organize schema convert outputs
Bankso Jan 17, 2025
9e78642
Update release_workflow.sh
Bankso Jan 17, 2025
8dcc1b0
Update annotationProperty.csv
Bankso Jan 24, 2025
df4b61a
Make and schema convert
Bankso Jan 24, 2025
9de1831
Update annotationProperty.csv
Bankso Jan 31, 2025
f273ecf
Add DOI attributes for components
Bankso Jan 31, 2025
39e1b71
Mark DOI attribute as required for resources
Bankso Jan 31, 2025
7bdc434
Import CDS valid values
Bankso Feb 5, 2025
43a436b
Update annotationProperty.csv
Bankso Feb 5, 2025
598edd2
Create anatomicSiteImageCDS.csv
Bankso Feb 5, 2025
1a844e9
Update mapping.yaml
Bankso Feb 5, 2025
adc82b0
Update dataset_species.csv
Bankso Feb 5, 2025
7d566fa
Create indexDate.csv
Bankso Feb 6, 2025
0179bc4
Update annotationProperty.csv
Bankso Feb 6, 2025
2492a0b
Update annotationProperty.csv
Bankso Feb 6, 2025
5601ea0
Create biospecimenCategory.csv
Bankso Feb 6, 2025
8b24c56
Update annotationProperty.csv
Bankso Feb 6, 2025
981d82d
Update mapping.yaml
Bankso Feb 6, 2025
653ae61
Update valid values
Bankso Feb 6, 2025
9ffd375
Add additional CDS vocab sheets
Bankso Feb 6, 2025
4280a38
Create eventType.csv
Bankso Feb 6, 2025
ebc86a5
Update recurrence.csv
Bankso Feb 6, 2025
a0f2c71
Create CDS_Proteomic-analytical_fractions2025-02-06 15-18-32.tsv
Bankso Feb 6, 2025
f34971c
Create specimenIncidence.csv
Bankso Feb 6, 2025
1220dc9
Update annotationProperty.csv
Bankso Feb 6, 2025
96aecd6
Update mapping.yaml
Bankso Feb 6, 2025
6294a39
Update gender.csv
Bankso Feb 7, 2025
6dadb7e
Update diseaseStatus.csv
Bankso Feb 7, 2025
64d4488
Update primaryDiagnosisCDS.csv
Bankso Feb 7, 2025
024467c
Create acquisitionMethod.csv
Bankso Feb 8, 2025
61910d5
Update biospecimenCategory.csv
Bankso Feb 8, 2025
df386d0
Update fixative.csv
Bankso Feb 8, 2025
fa76e28
Update pathology.csv
Bankso Feb 8, 2025
93f32de
Update specimenComp.csv
Bankso Feb 8, 2025
12b12f7
Update specimenIncidence.csv
Bankso Feb 8, 2025
5591610
Update tumorMorphology.csv
Bankso Feb 8, 2025
f705c8a
Update tumorStatus.csv
Bankso Feb 8, 2025
7668b97
Update eventType.csv
Bankso Feb 8, 2025
de06b1d
Update imageAssay.csv
Bankso Feb 8, 2025
ce44ec3
Update immersion.csv
Bankso Feb 8, 2025
3561dd6
Update gender.csv
Bankso Feb 8, 2025
fac40cb
Update lymphStage.csv
Bankso Feb 8, 2025
7d60734
Update metStage.csv
Bankso Feb 8, 2025
3698b1d
Update primaryStage.csv
Bankso Feb 8, 2025
9942abd
Update recurrence.csv
Bankso Feb 8, 2025
a02facb
Update libraryLayout.csv
Bankso Feb 8, 2025
e36e6b9
Update librarySelection.csv
Bankso Feb 8, 2025
a10c592
Update librarySource.csv
Bankso Feb 8, 2025
13820fa
Update libraryStrategy.csv
Bankso Feb 8, 2025
38a365b
Update seqPlatform.csv
Bankso Feb 8, 2025
179f37a
Update anatomicSite.csv
Bankso Feb 8, 2025
229126e
Update anatomicSiteImageCDS.csv
Bankso Feb 8, 2025
4b5e712
Update biologicalSex.csv
Bankso Feb 8, 2025
1741736
Update diseaseStatus.csv
Bankso Feb 8, 2025
983fb07
Update diseaseType.csv
Bankso Feb 8, 2025
749fb4c
Delete metStatus.csv
Bankso Feb 8, 2025
d25e92e
Update primaryDiagnosisCDS.csv
Bankso Feb 8, 2025
4be33b3
Update primaryDiseaseSite.csv
Bankso Feb 8, 2025
3034111
Update therapeuticAgent.csv
Bankso Feb 8, 2025
e40e406
Update tissueOrganOriginCDS.csv
Bankso Feb 8, 2025
b2e2701
Update treatmentOutcome.csv
Bankso Feb 8, 2025
16b4267
Update treatmentType.csv
Bankso Feb 8, 2025
d5d7baf
Update tumorGrade.csv
Bankso Feb 8, 2025
28d93aa
Update deIdMethod.csv
Bankso Feb 8, 2025
35d2708
Update indexDate.csv
Bankso Feb 8, 2025
ffdf76e
Update studyLicense.csv
Bankso Feb 8, 2025
a334c19
Remove unused terms
Bankso Feb 8, 2025
e0c2dd4
Update annotationProperty.csv
Bankso Feb 8, 2025
1b65157
Remove unneeded files
Bankso Feb 8, 2025
d4615dc
Delete resectionBiopsySiteCDS.csv
Bankso Feb 8, 2025
d916219
Update mapping.yaml
Bankso Feb 8, 2025
720548a
Biospecimen updates
Bankso Feb 8, 2025
8cafc51
Update annotationProperty.csv
Bankso Feb 8, 2025
c968185
Update annotationProperty.csv
Bankso Feb 8, 2025
2eb167e
Update annotationProperty.csv
Bankso Feb 8, 2025
1b3a7c8
Update annotationProperty.csv
Bankso Feb 8, 2025
fabf22c
Update annotationProperty.csv
Bankso Feb 8, 2025
0539af2
Update annotationProperty.csv
Bankso Feb 8, 2025
32f9698
Update annotationProperty.csv
Bankso Feb 8, 2025
083ce94
Update annotationProperty.csv
Bankso Feb 8, 2025
f4df02b
Update all_valid_values.csv
Bankso Feb 8, 2025
26da7cf
Update mc2.model.csv
Bankso Feb 8, 2025
b6a911d
Update mc2.model.jsonld
Bankso Feb 8, 2025
be73e58
Update .gitignore
Bankso Feb 8, 2025
9b5ea40
Delete cds_vocab directory
Bankso Feb 8, 2025
01d2591
Add modified model for use with union_qc.py
Bankso Feb 13, 2025
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6 changes: 5 additions & 1 deletion .gitignore
Original file line number Diff line number Diff line change
Expand Up @@ -46,4 +46,8 @@ great_expectations/
**/**/.DS_Store

# MKDocs
scripts/__pycache__
scripts/__pycache__

# Working files and folders
mc2_all_attributes_map.csv
cds_vocab/
5,068 changes: 1,933 additions & 3,135 deletions all_valid_values.csv

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