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mskcc / pluto-cwl

CWL workflows for helix filter scripts
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refactor samples_fillout_workflow to use scatter at getbasecountsmultisample step #73

Closed stevekm closed 2 years ago

stevekm commented 2 years ago

The current implementation of GetBaseCountsMultiSample in the workflow runs one instance for all supplied bam files

To future-proof this against large numbers of input bam files, need to convert this to a scatter step and run each bam fillout individually then merge the results together in a CLI-arg-length safe manner (using pre-exising CWL steps)

stevekm commented 2 years ago

Closing this because we are currently utilizing the multi-sample output from the current implementation so maybe we should not change it to a scatter step