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cwl-ica create-workflow-submission-template \ --workflow-path "${CWL_ICA_REPO_PATH}/GitHub/UMCCR/cwl-ica/workflows/dragen-somatic-pipeline/3.9.3/dragen-somatic-pipeline__3.9.3.cwl" \ --project development_workflows \ --launch-project development \ --prefix "tumor_bam_input_test" \ --gds-prefix gds://development/temp/alexis/
Yields
2023-03-06 11:23:00,196 - WARNING - cwl_schema - get_sanitised_object : LineNo. 187 - Don't know what to do with key read_1 2023-03-06 11:23:00,197 - WARNING - cwl_schema - get_sanitised_object : LineNo. 188 - ordereddict([('label', 'read 1'), ('doc', 'The path to R1 of a sample\n'), ('type', ['File', 'string']), ('streamable', True)]) 2023-03-06 11:23:00,197 - WARNING - cwl_schema - get_sanitised_object : LineNo. 196 - Expected a dict to be left for read_1 2023-03-06 11:23:00,197 - WARNING - cwl_schema - get_sanitised_object : LineNo. 197 - Got ordereddict([('label', 'read 1'), ('doc', 'The path to R1 of a sample\n'), ('type', ['File', 'string']), ('streamable', True)]) 2023-03-06 11:23:00,216 - WARNING - cwl_schema - get_sanitised_object : LineNo. 187 - Don't know what to do with key read_1 2023-03-06 11:23:00,216 - WARNING - cwl_schema - get_sanitised_object : LineNo. 188 - ordereddict([('label', 'read 1'), ('doc', 'The path to R1 of a sample\n'), ('type', ['File', 'string']), ('streamable', True)]) 2023-03-06 11:23:00,216 - WARNING - cwl_schema - get_sanitised_object : LineNo. 196 - Expected a dict to be left for read_1 2023-03-06 11:23:00,217 - WARNING - cwl_schema - get_sanitised_object : LineNo. 197 - Got ordereddict([('label', 'read 1'), ('doc', 'The path to R1 of a sample\n'), ('type', ['File', 'string']), ('streamable', True)]) 2023-03-06 11:23:00,218 - INFO - create_submission_template - __call__ : LineNo. 116 - Writing out input yaml file to tumor_bam_input_test.template.yaml 2023-03-06 11:23:00,249 - INFO - create_submission_template - __call__ : LineNo. 123 - Writing wrapper script to tumor_bam_input_test.launch.sh
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Yields
The text was updated successfully, but these errors were encountered: