Adding logic for default timeouts when running WDL on DNAnexus.

broadinstitute / viral-ngs

Viral genomics analysis pipelines

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Adding logic for default timeouts when running WDL on DNAnexus. #983

Closed godotgildor closed 5 years ago

godotgildor commented 5 years ago

I noticed that some of the CI runs on the DNAnexus platform were failing but the jobs did not terminate for over a month. This PR attempts to add a default timeout of 9 hours to each stage of the given WDL workflow.

Note: I have not tested these changes as I don't have access to the CI system. @mlin, I'm hoping you might be able to help here?