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When executing a workflow with the workflow in the argument yaml file using cwl:tool: works as expected.
When executing it with --provenance PROV the provenance should show all files and provenance elements.
Actual Behavior
However when executing it with --provenance PROV the provenance does not show any individual workflow files.
To explain it a bit in more detail...
When running the workflow using local cwl files it works
cwltool --outdir OUT --provenance PROV ../workflows/workflow_longread_quality.cwl longread_quality/no_kraken.yaml
Expected Behavior
When executing a workflow with the workflow in the argument yaml file using cwl:tool: works as expected.
When executing it with
--provenance PROV
the provenance should show all files and provenance elements.Actual Behavior
However when executing it with
--provenance PROV
the provenance does not show any individual workflow files.To explain it a bit in more detail...
When running the workflow using local cwl files it works
cwltool --outdir OUT --provenance PROV ../workflows/workflow_longread_quality.cwl longread_quality/no_kraken.yaml
When running it like
cwltool --outdir OUT --provenance PROV https://gitlab.com/m-unlock/cwl/-/raw/master/workflows/workflow_longread_quality.cwl longread_quality/no_kraken.yaml
it does not show the individual cwl files. Neither when executing it like
Workflow Code
Your Environment
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