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Automated security rollout could not apply this cleanly. Resolve the remaining conflict markers and *.rej files, then open a PR from 'patch' into 'dev'. Patch source: this pipeline's TEMPLATE branch never received the nf-core/tools 4.0.3 sync, so the change was taken from nf-core/abotyper's TEMPLATE with the repository identity in branch.yml rewritten for this pipeline. While resolving, check that no file ended up naming nf-core/abotyper. Note: these files had their conflicts resolved for you, by resetting them wholesale to the nf-core/tools 4.0.3 template version — so they carry no markers even though they conflicted. Review them: .github/workflows/branch.yml .github/workflows/template-version-comment.yml
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Warning Newer version of the nf-core template is available. Your pipeline is using an old version of the nf-core template: 3.2.0. For more documentation on how to update your pipeline, please see the nf-core documentation and Synchronisation documentation. |
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Security patch
This PR applies a security fix included in nf-core/tools 4.0.3 for a potential exploit in the GitHub Actions workflows that post comments on pull requests.
For details, see the related security advisory: https://nf-co.re/advisories/pr-comment-workflow-vulnerability
The fix must be merged into the default branch to take effect. Please merge this PR as soon as possible.
These changes only affect CI workflows, so merging them into the default branch does not require a new pipeline release.