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Split variantannotation in its own pipeline and import it #1561

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Split variantannotation in its own pipeline and import it #1561

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Commits on Jun 11, 2024

  1. POC

    @maxulysse
    maxulysse committed Jun 11, 2024
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Commits on Jun 12, 2024

  1. simplify import

    @maxulysse
    maxulysse committed Jun 12, 2024
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  2. need a channel

    @maxulysse
    maxulysse committed Jun 12, 2024
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  3. commit fix from upstream

    @maxulysse
    maxulysse committed Jun 12, 2024
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  4. handle skipping multiQC

    @maxulysse
    maxulysse committed Jun 12, 2024
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  5. Merge branch 'dev' into add_variantannotation

    @maxulysse
    maxulysse committed Jun 12, 2024
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  6. need a channel

    @maxulysse
    maxulysse committed Jun 12, 2024
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  7. really need a channel

    @maxulysse
    maxulysse committed Jun 12, 2024
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  8. properly handle multiqc skip

    @maxulysse
    maxulysse committed Jun 12, 2024
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  9. properly handle multiqc skip

    @maxulysse
    maxulysse committed Jun 12, 2024
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  10. no vep only if merge only

    @maxulysse
    maxulysse committed Jun 12, 2024
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  11. reorder schema

    @maxulysse
    maxulysse committed Jun 12, 2024
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  12. reorder config

    @maxulysse
    maxulysse committed Jun 12, 2024
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  13. composite configs

    @maxulysse
    maxulysse committed Jun 12, 2024
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  14. composite nextflow_schema.json

    @maxulysse
    maxulysse committed Jun 12, 2024
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  15. reorder config files

    @maxulysse
    maxulysse committed Jun 12, 2024
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  16. composite samplesheet

    @maxulysse
    maxulysse committed Jun 12, 2024
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  17. import upstream fix for bcftools_annotate channel formatting

    @maxulysse
    maxulysse committed Jun 12, 2024
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  18. update bcftools/annotate

    @maxulysse
    maxulysse committed Jun 12, 2024
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  19. code polish

    @maxulysse
    maxulysse committed Jun 12, 2024
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  20. update modules test data path

    @maxulysse
    maxulysse committed Jun 12, 2024
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  21. deal nicely with meta.variantcaller

    @maxulysse
    maxulysse committed Jun 12, 2024
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  22. fix link

    @maxulysse
    maxulysse committed Jun 12, 2024
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Commits on Jun 13, 2024

  1. nicer skip of MultiQC

    @maxulysse
    maxulysse committed Jun 13, 2024
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