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Cleanup codebase #9

Merged
merged 25 commits into from
Aug 24, 2023
Merged

Cleanup codebase #9

merged 25 commits into from
Aug 24, 2023

Commits on Aug 17, 2023

  1. remove workfowRunname under id in output str

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  2. Remove top-level runName in output

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  3. Use id column from samplesheet if specified

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  4. Remove unused code

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  5. Lint with prettier

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  6. Use improved H&E store compatible with Minerva 1.5

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  7. Remove custom index.html as is generated by save_exhibit_pyramid

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  8. Remove unused items from Dockerfile

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  9. Update readme

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  10. Lint he_story

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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  11. Merge pull request #10 from Sage-Bionetworks-Workflows/simplify_output 

    Simplify output
    @adamjtaylor
    adamjtaylor authored Aug 17, 2023
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  12. Merge pull request #11 from Sage-Bionetworks-Workflows/custom_id_in_s… 

    …amplesheet

Use id column from samplesheet if specified
    @adamjtaylor
    adamjtaylor authored Aug 17, 2023
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  13. Resolved merge conflict by removing modules/minerva.nf

    @adamjtaylor
    adamjtaylor committed Aug 17, 2023
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Commits on Aug 18, 2023

  1. Revert "Resolved merge conflict by removing modules/minerva.nf" 

    This reverts commit 3d05bcb, reversing
changes made to b80c7bf.
    @adamjtaylor
    adamjtaylor committed Aug 18, 2023
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  2. Add TODO.md

    @adamjtaylor
    adamjtaylor committed Aug 18, 2023
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  3. Add output structure to readme

    @adamjtaylor
    adamjtaylor committed Aug 18, 2023
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  4. Update options section of readme

    @adamjtaylor
    adamjtaylor committed Aug 18, 2023
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  5. Add id to samplesheet readme

    @adamjtaylor
    adamjtaylor committed Aug 18, 2023
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Commits on Aug 19, 2023

  1. Add labels to all processes

    @adamjtaylor
    adamjtaylor committed Aug 19, 2023
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Commits on Aug 21, 2023

  1. Tag each process with meta.id

    @adamjtaylor
    adamjtaylor committed Aug 21, 2023
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Commits on Aug 22, 2023

  1. Update logic for H&E minerva stories

    @adamjtaylor
    adamjtaylor committed Aug 22, 2023
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  2. Update test datasets

    @adamjtaylor
    adamjtaylor committed Aug 22, 2023
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  3. Update .gitignore

    @adamjtaylor
    adamjtaylor committed Aug 22, 2023
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  4. Move to minerva-author v1.14.0

    @adamjtaylor
    adamjtaylor committed Aug 22, 2023
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  5. Update TODO.md

    @adamjtaylor
    adamjtaylor committed Aug 22, 2023
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