populationgenomics / populationgenomics/cpg-utils
Watch task hasn't failed when underlying task was aborted
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- Dominant language
- Python
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- 0
- Forks
- 1
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Description
Batch https://batch.hail.populationgenomics.org.au/batches/466835/jobs/77
This job has been aborted, but the Cromwell Watch task doesn't seem to respect that...
Cromwell workflow has concluded - fetching log
Cromwell status watch caught general exception (sleeping=3990): 'aborted' is not a valid ExecutionStatus
Contributor guide
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First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start in cpg_utils/cromwell.py at lines 556-561 and review the watch task's handling of the Cromwell status returned for batch 466835, job 77. Reproduce or inspect the aborted-job case and verify that the watch task handles the aborted status without the invalid ExecutionStatus exception and reports the underlying failure.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- backend
- Issue type
- Bug
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Clearly specified
- Newbie friendliness
- 48/100