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Important! Template update for nf-core/tools v4.1.0 - #111

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vagkaratzas merged 9 commits into
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nf-core-template-merge-4.1.0
Sep 2, 2026
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Important! Template update for nf-core/tools v4.1.0#111
vagkaratzas merged 9 commits into
devfrom
nf-core-template-merge-4.1.0

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@nf-core-bot

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Version 4.1.0 of nf-core/tools has just been released with updates to the nf-core template. For more details, check out the blog post: https://nf-co.re/blog/2026/tools-4_1_0

Please make sure to merge this pull-request as soon as possible, resolving any merge conflicts in the nf-core-template-merge-4.1.0 branch (or your own fork, if you prefer). Once complete, make a new minor release of your pipeline.

For instructions on how to merge this PR, please see the template sync documentation.

For more information about this release of nf-core/tools, please see the v4.1.0 release page.

Note

Since nf-core/tools 3.5.0, older template update PRs will not be automatically closed, but will remain open in your pipeline repository. Older template PRs will be automatically closed once a newer template PR has been merged.

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github-actions Bot commented Sep 2, 2026

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nf-core pipelines lint overall result: Passed ✅

Posted for pipeline commit 12d89ba

+| ✅ 233 tests passed       |+
#| ❔  10 tests were ignored |#
Details

❔ Tests ignored:

  • files_exist - File is ignored: .github/workflows/ci.yml
  • files_exist - File is ignored: conf/igenomes.config
  • files_exist - File is ignored: conf/igenomes_ignored.config
  • files_exist - File is ignored: .github/workflows/linting_comment.yml
  • files_unchanged - File ignored due to lint config: .github/PULL_REQUEST_TEMPLATE.md
  • files_unchanged - File ignored due to lint config: .github/workflows/branch.yml
  • files_unchanged - File ignored due to lint config: .github/workflows/linting.yml
  • files_unchanged - File ignored due to lint config: assets/nf-core-proteinannotator_logo_light.png
  • files_unchanged - File ignored due to lint config: docs/images/nf-core-proteinannotator_logo_light.png
  • files_unchanged - File ignored due to lint config: docs/images/nf-core-proteinannotator_logo_dark.png

✅ Tests passed:

Run details

  • nf-core/tools version 4.1.0
  • Run at 2026-09-02 12:22:58

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Not deleting these old files?

linux_amd64-bd-c1f4a7982b743963_1.txt
linux_amd64-bd-db7c73dae76bc9e6_1.txt
linux_arm64-bd-40bf3b435e89dc22_1.txt
linux_arm64-bd-d167b8012595a136_1.txt

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oooh, good catch..completely missed this

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Very easy to miss

Comment thread CHANGELOG.md
@vagkaratzas
vagkaratzas merged commit 0ed3a12 into dev Sep 2, 2026
23 checks passed
@vagkaratzas
vagkaratzas deleted the nf-core-template-merge-4.1.0 branch September 2, 2026 12:38
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3 participants