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Second attempt at updating all modules #455

Merged
merged 29 commits into from
Nov 25, 2021
Merged

Second attempt at updating all modules #455

merged 29 commits into from
Nov 25, 2021

Commits on Nov 22, 2021

  1. feat: update test data

    @maxulysse
    maxulysse committed Nov 22, 2021
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  2. fix: using tools dev for linting

    @maxulysse
    maxulysse committed Nov 22, 2021
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  3. fix: linting

    @maxulysse
    maxulysse committed Nov 22, 2021
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  4. fix lint

    @maxulysse
    maxulysse committed Nov 22, 2021
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  5. sync template for lint

    @maxulysse
    maxulysse committed Nov 22, 2021
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  6. fix: update tests

    @maxulysse
    maxulysse committed Nov 22, 2021
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  7. fix tests

    @maxulysse
    maxulysse committed Nov 22, 2021
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  8. remove part of tests for now

    @maxulysse
    maxulysse committed Nov 22, 2021
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Commits on Nov 23, 2021

  1. fix: save bam and bai

    @maxulysse
    maxulysse committed Nov 23, 2021
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  2. feat: update markduplicates

    @maxulysse
    maxulysse committed Nov 23, 2021
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  3. feat: update modules bwa/index

    @maxulysse
    maxulysse committed Nov 23, 2021
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  4. feat: update modules bwamem2/index

    @maxulysse
    maxulysse committed Nov 23, 2021
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  5. feat: update modules gatk4/createsequencedictionary

    @maxulysse
    maxulysse committed Nov 23, 2021
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Commits on Nov 24, 2021

  1. feat: update more modules

    @maxulysse
    maxulysse committed Nov 24, 2021
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  2. fix: update syntax for samtools/merge

    @maxulysse
    maxulysse committed Nov 24, 2021
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  3. fix: update output for annotation subworkflows

    @maxulysse
    maxulysse committed Nov 24, 2021
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  4. feat: update subworkflows

    @maxulysse
    maxulysse committed Nov 24, 2021
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  5. Merge branch 'dev' into dev_tools_update_2

    @maxulysse
    maxulysse authored Nov 24, 2021
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  6. fix: input files order more consistent

    @maxulysse
    maxulysse committed Nov 24, 2021
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  7. install modules qualimap/bamqc

    @maxulysse
    maxulysse committed Nov 24, 2021
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  8. feat: install modules samtools/stats

    @maxulysse
    maxulysse committed Nov 24, 2021
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  9. update samtools/view

    @maxulysse
    maxulysse committed Nov 24, 2021
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  10. feat: update samtools/index

    @maxulysse
    maxulysse committed Nov 24, 2021
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  11. chores: update local modules

    @maxulysse
    maxulysse committed Nov 24, 2021
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  12. fix: update output for versions

    @maxulysse
    maxulysse committed Nov 24, 2021
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  13. chores: updates more subworkflows

    @maxulysse
    maxulysse committed Nov 24, 2021
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  14. chores: update more modules

    @maxulysse
    maxulysse committed Nov 24, 2021
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  15. fix: nf-core lint + EClint

    @maxulysse
    maxulysse committed Nov 24, 2021
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  16. fix: output

    @maxulysse
    maxulysse committed Nov 24, 2021
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