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demux_deplete small updates#552

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dpark01 merged 10 commits intomasterbroadinstitute/viral-pipelines:masterfrom dp-demuxbroadinstitute/viral-pipelines:dp-demuxCopy head branch name to clipboardAug 22, 2024

+38-10

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Commits on Aug 21, 2024

• fix newline outputs of csv.DictWriter invocations

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Commits on Aug 22, 2024

• Merge branch 'dp-demux' of https://github.com/broadinstitute/viral-pipelines into dp-demux

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• add flowcell id to libraries table

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• make sure to error if python code errors

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• oops, parameterize hardcoded library table name

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• emit workflow level output files

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• add read counts to library table

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• fix parsing of wdl Pair objects are serialized

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• current dxWDL doesnt like write_json, skip demux_deplete for dxWDL

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• need to skip dnax build on uber-workflow that uses demux_deplete

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