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Merged
merged 3 commits into from
Sep 25, 2024
Merged

Improve documentation for Bracken ignore errorStrategy #532

merged 3 commits into from
Sep 25, 2024

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jfy133
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@jfy133 jfy133 commented Sep 20, 2024

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/taxprofiler branch on the nf-core/test-datasets repository.
  • Make sure your code lints (nf-core 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).

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github-actions bot commented Sep 20, 2024 •
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit 0085e8f

+| ✅ 267 tests passed       |+
!| ❗   2 tests had warnings |!

❗ Test warnings:

  • nextflow_config - Config manifest.version should end in dev: 1.2
  • pipeline_todos - TODO string in ci.yml: You can customise CI pipeline run tests as required

✅ Tests passed:

Run details

  • nf-core/tools version 2.14.1
  • Run at 2024-09-20 12:09:54

LilyAnderssonLee
LilyAnderssonLee approved these changes Sep 25, 2024
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LGTM!

@jfy133 jfy133 merged commit 0f5651f into dev Sep 25, 2024
24 checks passed
@jfy133 jfy133 deleted the improve-exitcode-docs branch September 25, 2024 09:00
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@LilyAnderssonLee LilyAnderssonLee LilyAnderssonLee approved these changes

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@jfy133 @LilyAnderssonLee