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[DRAFT] Beagle Imputation WDL #1238

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wants to merge 26 commits into from
Closed

[DRAFT] Beagle Imputation WDL #1238

wants to merge 26 commits into from

Commits on Feb 7, 2024

  1. Merge pull request #1198 from broadinstitute/staging 

    Staging -> master
    @nikellepetrillo
    nikellepetrillo authored Feb 7, 2024
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  2. Merge pull request #1200 from broadinstitute/develop 

    dev -> staging
    @nikellepetrillo
    nikellepetrillo authored Feb 7, 2024
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Commits on Feb 8, 2024

  1. Merge pull request #1202 from broadinstitute/staging 

    Staging -> master
    @nikellepetrillo
    nikellepetrillo authored Feb 8, 2024
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Commits on Feb 16, 2024

  1. Merge pull request #1208 from broadinstitute/develop 

    dev -> staging
    @nikellepetrillo
    nikellepetrillo authored Feb 16, 2024
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Commits on Feb 20, 2024

  1. Merge pull request #1209 from broadinstitute/staging 

    Staging -> master
    @nikellepetrillo
    nikellepetrillo authored Feb 20, 2024
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Commits on Feb 28, 2024

  1. wip add beagle imputation stuff

    @mmorgantaylor
    mmorgantaylor committed Feb 28, 2024
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  2. add 2 wdls to dockstore.yml

    @mmorgantaylor
    mmorgantaylor committed Feb 28, 2024
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  3. fix docker gar url

    @mmorgantaylor
    mmorgantaylor committed Feb 28, 2024
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  4. use the right path for jars

    @mmorgantaylor
    mmorgantaylor committed Feb 28, 2024
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  5. wip on imputation wdl

    @mmorgantaylor
    mmorgantaylor committed Feb 28, 2024
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  6. oops use correct jar

    @mmorgantaylor
    mmorgantaylor committed Feb 28, 2024
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  7. missing equals

    @mmorgantaylor
    mmorgantaylor committed Feb 28, 2024
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  8. fix java call again

    @mmorgantaylor
    mmorgantaylor committed Feb 28, 2024
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Commits on Feb 29, 2024

  1. fix java call

    @mmorgantaylor
    mmorgantaylor committed Feb 29, 2024
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  2. oops match file names

    @mmorgantaylor
    mmorgantaylor committed Feb 29, 2024
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Commits on Mar 1, 2024

  1. update beagle jar to 01Mar24.d36

    @mmorgantaylor
    mmorgantaylor committed Mar 1, 2024
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Commits on Mar 2, 2024

  1. debug GatherVcfs

    @mmorgantaylor
    mmorgantaylor committed Mar 2, 2024
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  2. debug GatherVcfs 2

    @mmorgantaylor
    mmorgantaylor committed Mar 2, 2024
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  3. try to resolve missing file issue

    @mmorgantaylor
    mmorgantaylor committed Mar 2, 2024
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Commits on Mar 4, 2024

  1. don't impute over padding

    @mmorgantaylor
    mmorgantaylor committed Mar 4, 2024
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  2. make the index again

    @mmorgantaylor
    mmorgantaylor committed Mar 4, 2024
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Commits on Mar 8, 2024

  1. supply vcf_index input to SelectVariantsByIds

    @mmorgantaylor
    mmorgantaylor committed Mar 8, 2024
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Commits on Mar 15, 2024

  1. update Imputation wdl too

    @mmorgantaylor
    mmorgantaylor committed Mar 15, 2024
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  2. newlines

    @mmorgantaylor
    mmorgantaylor committed Mar 15, 2024
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Commits on Mar 19, 2024

  1. update for hg38

    @mmorgantaylor
    mmorgantaylor committed Mar 19, 2024
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  2. Revert "update for hg38" 

    This reverts commit 3757137.
    @mmorgantaylor
    mmorgantaylor committed Mar 19, 2024
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