Complete Python 3.14.2-alpine upgrade with container versioning#290
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[WIP] Update workflow for improved automation
Complete Python 3.14.2-alpine upgrade with container versioning
Jan 21, 2026
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Snyk's automated PR updated the Dockerfile but missed the repository's
container versioning system. Container images are tagged as
`{version}-{revision}` based on `package.json`, and workflows reference
these tags explicitly.
## Changes
- Incremented `docker/umap/package.json` revision: `10` → `11`
- Updated `workflows/methylation/methylation-cohort.wdl` container tag:
`ghcr.io/stjudecloud/umap:0.5.7-10` → `0.5.7-11`
This ensures the Python 3.14.2-alpine base image (fixing 2 critical + 2
high severity vulnerabilities) is properly versioned and consumed by
dependent workflows.
Before submitting this PR, please make sure:
- [x] You have added a few sentences describing the PR here.
- [ ] The code passes all CI tests without any errors or warnings.
- [ ] You have added tests (when appropriate).
- [ ] You have added an entry in any relevant CHANGELOGs (when
appropriate).
- [x] If you have made any changes to the `scripts/` or `docker/`
directories, please ensure any image versions have been incremented
accordingly!
- [ ] You have updated the README or other documentation to account for
these changes (when appropriate).
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Snyk's automated PR updated the Dockerfile but missed the repository's container versioning system. Container images are tagged as
{version}-{revision}based onpackage.json, and workflows reference these tags explicitly.Changes
docker/umap/package.jsonrevision:10→11workflows/methylation/methylation-cohort.wdlcontainer tag:ghcr.io/stjudecloud/umap:0.5.7-10→0.5.7-11This ensures the Python 3.14.2-alpine base image (fixing 2 critical + 2 high severity vulnerabilities) is properly versioned and consumed by dependent workflows.
Before submitting this PR, please make sure:
scripts/ordocker/directories, please ensure any image versions have been incremented accordingly!Original prompt
💬 We'd love your input! Share your thoughts on Copilot coding agent in our 2 minute survey.