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Shex for Standard Annotations #319

Merged
merged 49 commits into from
Aug 23, 2024
Merged

Shex for Standard Annotations #319

merged 49 commits into from
Aug 23, 2024

Commits on Nov 30, 2022

  1. Added gitignore to the python folder

    @tmushayahama
    tmushayahama committed Nov 30, 2022
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  2. Added gitignore to python folder

    @tmushayahama
    tmushayahama committed Nov 30, 2022
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  3. fix: exclude_from_extensions to boolean from list of booleans

    @tmushayahama
    tmushayahama committed Nov 30, 2022
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Commits on Dec 1, 2022

  1. inits on adding linkml for shex term metadata

    @tmushayahama
    tmushayahama committed Dec 1, 2022
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  2. added more excluded from extension from noctua workbench call

    @tmushayahama
    tmushayahama committed Dec 1, 2022
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  3. fix actions syntax errors

    @sierra-moxon
    sierra-moxon committed Dec 1, 2022
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  4. add schema prefix

    @sierra-moxon
    sierra-moxon committed Dec 1, 2022
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  5. add an import for shex_json_linkml

    @sierra-moxon
    sierra-moxon committed Dec 1, 2022
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Commits on Dec 8, 2022

  1. Adding the shex shorthand for overriding the labels

    @tmushayahama
    tmushayahama committed Dec 8, 2022
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  2. Merge branch 'json-export' of https://github.com/geneontology/go-shapes… 

    … into json-export
    @tmushayahama
    tmushayahama committed Dec 8, 2022
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  3. Added root_subject on linkml and json export.py

    @tmushayahama
    tmushayahama committed Dec 8, 2022
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Commits on Dec 20, 2022

  1. Adding has_primary_input and has_primary_output to MF shape

    @vanaukenk
    vanaukenk authored Dec 20, 2022
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  2. Merge pull request #295 from geneontology/vanaukenk-patch-15 

    Adding has_primary_input and has_primary_output to MF shape
    @vanaukenk
    vanaukenk authored Dec 20, 2022
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  3. Adding has_primary_input and has_primary_output to transporter activi… 

    …ty shape
    @vanaukenk
    vanaukenk authored Dec 20, 2022
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  4. Merge pull request #296 from geneontology/vanaukenk-patch-15 

    Adding has_primary_input and has_primary_output to transporter activi…
    @vanaukenk
    vanaukenk authored Dec 20, 2022
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Commits on Feb 2, 2023

  1. Update go-cam-shapes.shex 

    Adding happens_during to BP shape
    @vanaukenk
    vanaukenk authored Feb 2, 2023
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  2. Merge pull request #297 from geneontology/vanaukenk-patch-16 

    Update go-cam-shapes.shex
    @vanaukenk
    vanaukenk authored Feb 2, 2023
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Commits on Mar 9, 2023

  1. Update go-cam-shapes.shex 

    Adding small molecule relation terms to MF and chemical entity shapes.
    @vanaukenk
    vanaukenk authored Mar 9, 2023
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Commits on Mar 10, 2023

  1. Merge pull request #300 from geneontology/vanaukenk-patch-16 

    Update go-cam-shapes.shex
    @vanaukenk
    vanaukenk authored Mar 10, 2023
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Commits on Dec 5, 2023

  1. Allow multiple enablers

    @balhoff
    balhoff authored Dec 5, 2023
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  2. Replace obsolete native cell with cell

    @balhoff
    balhoff authored Dec 5, 2023
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  3. Fix additional mentions of native cell

    @balhoff
    balhoff authored Dec 5, 2023
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Commits on Dec 14, 2023

  1. Replace CHEBI term in test.

    @balhoff
    balhoff committed Dec 14, 2023
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  2. Merge branch 'broken-CI' into balhoff-patch-3

    @balhoff
    balhoff committed Dec 14, 2023
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  3. Merge pull request #304 from geneontology/balhoff-patch-3 

    Replace obsolete native cell with cell
    @balhoff
    balhoff authored Dec 14, 2023
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  4. Merge branch 'master' into balhoff-patch-2

    @balhoff
    balhoff committed Dec 14, 2023
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  5. Merge pull request #303 from geneontology/balhoff-patch-2 

    Allow multiple enablers
    @balhoff
    balhoff authored Dec 14, 2023
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Commits on Mar 6, 2024

  1. Fix obsolete GO terms in test models. (#308)

    @balhoff
    balhoff authored Mar 6, 2024
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Commits on Mar 19, 2024

  1. Create WIP_standard_annot_ShEx

    @vanaukenk
    vanaukenk authored Mar 19, 2024
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  2. Merge pull request #310 from geneontology/vanaukenk-patch-16 

    Create WIP_standard_annot_ShEx
    @vanaukenk
    vanaukenk authored Mar 19, 2024
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  3. Update WIP_standard_annot_ShEx

    @vanaukenk
    vanaukenk authored Mar 19, 2024
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  4. Merge pull request #311 from geneontology/vanaukenk-patch-17 

    Update WIP_standard_annot_ShEx
    @vanaukenk
    vanaukenk authored Mar 19, 2024
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Commits on Mar 20, 2024

  1. resolve conflict

    @tmushayahama
    tmushayahama committed Mar 20, 2024
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Commits on May 1, 2024

  1. Update go-cam-shapes.shex 

    Adding primary input and primary output to main BP shape as a test of the reasoner.
    @vanaukenk
    vanaukenk authored May 1, 2024
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  2. Merge pull request #312 from geneontology/vanaukenk-patch-16 

    Update go-cam-shapes.shex
    @vanaukenk
    vanaukenk authored May 1, 2024
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Commits on May 2, 2024

  1. Update WIP_standard_annot_ShEx 

    A few small modifications for workbenches discussion tomorrow
    @vanaukenk
    vanaukenk authored May 2, 2024
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  2. Merge pull request #313 from geneontology/vanaukenk-patch-16 

    Update WIP_standard_annot_ShEx
    @vanaukenk
    vanaukenk authored May 2, 2024
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Commits on May 9, 2024

  1. Update README.md 

    Removed a new line
genontology/noctua-standard-annotations#14
    @vanaukenk
    vanaukenk authored May 9, 2024
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  2. Update go-cam-shapes.shex 

    Added an extra line
    @vanaukenk
    vanaukenk authored May 9, 2024
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Commits on May 10, 2024

  1. Update go-cam-shapes.shex 

    Adding  // <exclude_from_extensions> true;
comment to constrain relations' use for standard annotations
    @vanaukenk
    vanaukenk authored May 10, 2024
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  2. Update go-cam-shapes.shex 

    Trying again with adding extensions rules.  Spaces vs tabs?
    @vanaukenk
    vanaukenk authored May 10, 2024
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Commits on May 13, 2024

  1. Update go-cam-shapes.shex 

    Removing extra semi-colon
    @vanaukenk
    vanaukenk authored May 13, 2024
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Commits on May 21, 2024

  1. Merge pull request #316 from geneontology/master 

    Getting the new Shex into the json export code
    @tmushayahama
    tmushayahama authored May 21, 2024
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  2. updated the json export code to use the curies lib

    @tmushayahama
    tmushayahama committed May 21, 2024
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Commits on May 30, 2024

  1. Merge pull request #315 from geneontology/issue-noctua-standard-annot… 

    …ations-14-kva-draft

Issue noctua standard annotations 14 kva draft
    @tmushayahama
    tmushayahama authored May 30, 2024
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Commits on Jun 4, 2024

  1. Update go-cam-shapes.shex

    @vanaukenk
    vanaukenk authored Jun 4, 2024
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Commits on Jun 5, 2024

  1. Now using the curies lib

    @tmushayahama
    tmushayahama committed Jun 5, 2024
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Commits on Jun 8, 2024

  1. Merge pull request #318 from geneontology/issue-noctua-standard-annot… 

    …ations-14-kva-draft

Update go-cam-shapes.shex
    @tmushayahama
    tmushayahama authored Jun 8, 2024
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Commits on Aug 23, 2024

  1. Merge branch 'dev' into json-export

    @tmushayahama
    tmushayahama authored Aug 23, 2024
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