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Peter Amstutz, 08/08/2016 02:35 PM
Common Workflow Language integration with Arvados¶
The main integration is arvados-cwl-runner
. This tool is used both as a client to submit a job to run the workflow (arvados-cwl-runner --submit
) and for running the workflow directly (arvados-cwl-runner --local
). When the user starts a CWL workflow from workbench, it functions similar to --submit
mode.
Because submit mode works by creating a "runner" job whose purpose is to manage execution of the workflow, it requires an arvados/jobs
Docker image with an up-to-date arvados-cwl-runner
.
- creates a job for each workflow steps
- submits it
- waits for it to complete
- gets the output collection for the job
- computes the CWL output object for the workflow step.
Updated by Peter Amstutz over 8 years ago · 3 revisions