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Support for single run quantification#438

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jonasscheid merged 9 commits into
nf-core:devfrom
jonasscheid:dev
Jan 23, 2026
Merged

Support for single run quantification#438
jonasscheid merged 9 commits into
nf-core:devfrom
jonasscheid:dev

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@jonasscheid

@jonasscheid jonasscheid commented Jan 15, 2026 •
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Fixing #437

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
  • If necessary, also make a PR on the nf-core/mhcquant branch on the nf-core/test-datasets repository.
  • 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).

@jonasscheid
Update CHANGELOG
8f39b60 
Added a new version section for 3.2.0dev with details.
@jonasscheid

jonasscheid commented Jan 15, 2026

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@nf-core-bot fix linting

@jonasscheid jonasscheid mentioned this pull request Jan 15, 2026
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@jonasscheid jonasscheid changed the title Support for single file quantification Support for single run quantification Jan 15, 2026
jonasscheid
jonasscheid commented Jan 15, 2026
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Comment thread tests/test_single_quant.nf.test.snap Outdated
mapo9
mapo9 approved these changes Jan 23, 2026
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Comment thread subworkflows/local/map_alignment/main.nf
@jonasscheid jonasscheid merged commit 5fcace6 into nf-core:dev Jan 23, 2026
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@jonasscheid jonasscheid mentioned this pull request Apr 22, 2026
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@mapo9 mapo9 mapo9 approved these changes

@marissaDubbelaar marissaDubbelaar Awaiting requested review from marissaDubbelaar marissaDubbelaar is a code owner

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