Deprecate BroadInternalUltimaGenomics#1525
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ekiernan merged 4 commits intoPD-2898-deprecate-pipelinesfrom Mar 6, 2025
Merged
Deprecate BroadInternalUltimaGenomics#1525ekiernan merged 4 commits intoPD-2898-deprecate-pipelinesfrom
ekiernan merged 4 commits intoPD-2898-deprecate-pipelinesfrom
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jessicaway
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Mar 6, 2025
aawdeh
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nikellepetrillo
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Mar 11, 2025
* Deprecating AnnotationFiltration and BroadInternalRNAWithUMIs (#1523) * deprecating rna with umis and annotation filtration * deprecate BroadInternalImputation.wdl (#1524) * Deprecate BroadInternalUltimaGenomics (#1525) * Deprecate JointGenotypingByChromosome (#1530) * deprecate * unnested dna_seq * chr1 * deprecation notices --------- Co-authored-by: ekiernan <ekiernan@broadinstitute.org> * deprecate BroadInternal Arrays (#1527) * Np deprecate scatac (#1531) * deprecated CheckFingerprint (#1526) * Pd 2898 deprecatesid -arrays (#1528) * deprecate External WGS Reprocessing (#1532) * deprecate SmartSeq2SingleSample (#1533) * deprecate ExternalExomeReprocessing.wdl (#1534) * deprecated the ValidateChip pipeline (#1535) * deprecate MultiSampleArrays.wdl (#1536) * Np remove deprecated pipelines from dockstore.yml and pipeline_versions.txt (#1539) * remove deprecated pipelines from .dockstore.yml * remove deprecated pipelines from pipeline_versions.txt * alpabetical order .dockstore.yml * Updated pipeline_versions.txt with all pipeline version information * Pd 2898 jw deprecate multisample ss2 (#1537) * deprecate MultiSampleSmartSeq2 * Updated pipeline_versions.txt with all pipeline version information * Update pipeline_versions.txt --------- Co-authored-by: GitHub Action <action@github.com> Co-authored-by: Nikelle Petrillo <38223776+nikellepetrillo@users.noreply.github.com> * Updated pipeline_versions.txt with all pipeline version information * move biobambam2 into deprecated * move biobambam2 into deprecated * skip deprecated wdls in womtools check * skip tests dir in womtools check * Update validate_wdls.sh --------- Co-authored-by: Elizabeth Kiernan <55763654+ekiernan@users.noreply.github.com> Co-authored-by: aawdeh <awdeh@broadinstitute.org> Co-authored-by: ekiernan <ekiernan@broadinstitute.org> Co-authored-by: Jessica Way <jway@broadinstitute.org> Co-authored-by: Robert Sidney Cox <sidcox@broadinstitute.org> Co-authored-by: GitHub Action <action@github.com>
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