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If a workflow fails during a test, test fail steps are not exited #37

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illusional opened this issue Jan 13, 2021 · 0 comments

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illusional commented Jan 13, 2021 •

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I believe this is because a SystemExit error is raised (by calling sys.exit) if the workflow / tool fails to run: https://github.com/PMCC-BioinformaticsCore/janis-assistant/blob/fbcefc665a9a23073830acb8f87cc41ea58bcf8f/janis_assistant/management/workflowmanager.py#L595-L598.

These need to be caught separately.

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