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Convert FastqToSam and RevertSam to use PicardHtsPath #1794

Merged
merged 18 commits into from
Apr 21, 2022
Merged

Convert FastqToSam and RevertSam to use PicardHtsPath #1794

merged 18 commits into from
Apr 21, 2022

Commits on Mar 15, 2022

  1. Simplify handling of paths for input

    @markjschreiber
    markjschreiber committed Mar 15, 2022
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Commits on Mar 16, 2022

  1. Use Paths for GatherVcfs input

    @markjschreiber
    markjschreiber committed Mar 16, 2022
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  2. Use Paths for MergeVcfs input

    @markjschreiber
    markjschreiber committed Mar 16, 2022
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  3. Use Paths for SplitVcfs input

    @markjschreiber
    markjschreiber committed Mar 16, 2022
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  4. Use Paths for AccumulateVariantCallingMetrics input

    @markjschreiber
    markjschreiber committed Mar 16, 2022
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  5. Use Paths for CollectVariantCallingMetrics input and dependencies

    @markjschreiber
    markjschreiber committed Mar 16, 2022
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  6. Use Paths for FixVcfHeader

    @markjschreiber
    markjschreiber committed Mar 16, 2022
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  7. Use Paths for GenotypeConcordance

    @markjschreiber
    markjschreiber committed Mar 16, 2022
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Commits on Mar 17, 2022

  1. Use HtsPath subclass PicardHtsPath and PR review changes

    @markjschreiber
    markjschreiber committed Mar 17, 2022
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Commits on Mar 22, 2022

  1. PR review changes

    @markjschreiber
    markjschreiber committed Mar 22, 2022
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Commits on Mar 28, 2022

  1. Added fromPaths method

    @markjschreiber
    markjschreiber committed Mar 28, 2022
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  2. Use PicardHtsPath

    @markjschreiber
    markjschreiber committed Mar 28, 2022
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Commits on Apr 6, 2022

  1. Merge branch 'broadinstitute:master' into master

    @markjschreiber
    markjschreiber authored Apr 6, 2022
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  2. Update to use PicardHtsPath

    @markjschreiber
    markjschreiber committed Apr 6, 2022
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  3. Update to use PicardHtsPath

    @markjschreiber
    markjschreiber committed Apr 6, 2022
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Commits on Apr 10, 2022

  1. Merge branch 'broadinstitute:master' into master

    @markjschreiber
    markjschreiber authored Apr 10, 2022
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  2. PR Feedback

    @markjschreiber
    markjschreiber committed Apr 10, 2022
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  3. PR Feedback

    @markjschreiber
    markjschreiber committed Apr 10, 2022
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