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Template update for nf-core/tools version 3.5.1#38

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famosab merged 16 commits into
qbic-pipelines:devfrom
famosab:t3.5.1
Dec 10, 2025
Merged

Template update for nf-core/tools version 3.5.1#38
famosab merged 16 commits into
qbic-pipelines:devfrom
famosab:t3.5.1

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@famosab
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@famosab famosab commented Dec 8, 2025

PR checklist

  • This comment contains a description of changes (with reason).
  • If you've fixed a bug or added code that should be tested, add tests!
  • If you've added a new tool - have you followed the pipeline conventions in the contribution docs
  • Make sure your code lints (nf-core pipelines lint).
  • Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
  • Check for unexpected warnings in debug mode (nextflow run . -profile debug,test,docker --outdir <OUTDIR>).
  • Usage Documentation in docs/usage.md is updated.
  • Output Documentation in docs/output.md is updated.
  • CHANGELOG.md is updated.
  • README.md is updated (including new tool citations and authors/contributors).

@famosab famosab changed the base branch from master to dev December 8, 2025 13:46
@qbic-pipelines qbic-pipelines deleted a comment from github-actions Bot Dec 8, 2025
@qbic-pipelines qbic-pipelines deleted a comment from github-actions Bot Dec 8, 2025
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@d4straub d4straub left a comment

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Looks good to me!

The topic additions to workflows/vcftomaf/main.nf are ignored though? Thats fine I think, just curious.

@famosab
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famosab commented Dec 9, 2025

Ah thats an oversight by me. I'll fix that :)

Comment thread modules/nf-core/multiqc/main.nf Outdated
@maxulysse
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Sorry no power here

@famosab famosab merged commit efda61b into qbic-pipelines:dev Dec 10, 2025
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@famosab famosab deleted the t3.5.1 branch December 10, 2025 11:56
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3 participants