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Upgrade CI and cwlpack to Python 3.12 - #199
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denis-yuen wants to merge 3 commits into
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pytest 9 requires Python >=3.10, so the Dependabot bump failed on 3.8. Move CI, the Lambda runtime and test/function dependencies to 3.12. Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>
Use npm ci --ignore-scripts, pip --only-binary :all:, pin aws-sam-cli, and bump actions/checkout and actions/setup-node. Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>
![github-advanced-security[bot]](https://avatars.githubusercontent.com/in/57789?s=60&v=4){kind=small}
| run: | | ||
| pip install -r tests/requirements.txt --user | ||
| pip install -r cwl_pack_function/requirements.txt --user | ||
| pip install --only-binary :all: -r tests/requirements.txt --user |
| pip install -r tests/requirements.txt --user | ||
| pip install -r cwl_pack_function/requirements.txt --user | ||
| pip install --only-binary :all: -r tests/requirements.txt --user | ||
| pip install --only-binary :all: -r cwl_pack_function/requirements.txt --user |
Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>
|
denis-yuen
requested review from
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October 7, 2026 17:29
denis-yuen
marked this pull request as ready for review
October 7, 2026 17:30
denis-yuen
added this pull request to stack #201
October 7, 2026 19:45
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Description
The Dependabot pytest 9.0.3 bump fails CI because pytest 9 needs Python >=3.10 and the workflow uses 3.8.
This moves CI and the cwlpack Lambda runtime to Python 3.12, bumps the pins that don't install there (pytest, pytest-mock, boto3, pylint, pygit2, sbpack), and fixes the
.pylintrcinit-hook. It also addresses SonarCloud install warnings (npm ci --ignore-scripts,pip --only-binary :all:, pinnedaws-sam-cli), bumpscheckout/setup-node/setup-python, and pins runners toubuntu-26.04.Issue
https://ucsc-cgl.atlassian.net/browse/SEAB-7772
Security
Touches dependency pins, install flags and the Lambda runtime. Should be an overall improvement.
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