wdl_runner: monitor, tests, latest Cromwell release

googlegenomics / pipelines-api-examples

Examples for the Google Genomics Pipelines API.

BSD 3-Clause "New" or "Revised" License

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wdl_runner: monitor, tests, latest Cromwell release #39

Closed mbookman closed 8 years ago

mbookman commented 8 years ago

Add wdl_runner/tools/monitor_wdl_pipeline.sh which can give some useful insight into a running workflow. Add test/tests/wdl_runner/test.README.wdl_pipeline_from_git.sh to make it easy to test one of the examples from the README. Update Dockerfile and setup.sh to pick up Cromwell 0.19.3.

Also modified poll.sh:

Default interval is now 60 seconds instead of 20
Default completed operation output is brief

deflaux commented 8 years ago

LGTM