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genome / analysis-workflows

Open workflow definitions for genomic analysis from MGI at WUSM.
MIT License
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Add cwltool requirement InlineJavascriptRequirement #1051

Open jasonwalker80 opened 2 years ago

jasonwalker80 commented 2 years ago

In the requirements, we need to add InlineJavascriptRequirement. This line causes cwltool to fail: https://github.com/genome/analysis-workflows/blob/43c790e2ee6a0f3f42e40fb4d9a9005eb8de747a/definitions/pipelines/somatic_exome.cwl#L555

tmooney commented 2 years ago

A similar issue exists in https://github.com/genome/analysis-workflows/blob/98fd710ff8b032efadeebf85563f4515f1864d40/definitions/subworkflows/cram_to_cnvkit.cwl We should check for other places using this construction, too!