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Module updates #85

Merged
merged 6 commits into from
Aug 16, 2024
Merged

Module updates #85

merged 6 commits into from
Aug 16, 2024

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fasterius
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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/spatialvi 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 Aug 16, 2024 •
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit d08876c

+| ✅ 181 tests passed       |+
#| ❔   6 tests were ignored |#
!| ❗   3 tests had warnings |!

❗ Test warnings:

  • readme - README contains the placeholder zenodo.XXXXXXX. This should be replaced with the zenodo doi (after the first release).
  • pipeline_todos - TODO string in README.md: Add citation for pipeline after first release. Uncomment lines below and update Zenodo doi and badge at the top of this file.
  • pipeline_todos - TODO string in awsfulltest.yml: You can customise AWS full pipeline tests as required

❔ Tests ignored:

  • files_exist - File is ignored: conf/igenomes.config
  • files_unchanged - File ignored due to lint config: .gitattributes
  • files_unchanged - File ignored due to lint config: assets/nf-core-spatialvi_logo_light.png
  • files_unchanged - File ignored due to lint config: docs/images/nf-core-spatialvi_logo_light.png
  • files_unchanged - File ignored due to lint config: docs/images/nf-core-spatialvi_logo_dark.png
  • actions_ci - actions_ci

✅ Tests passed:

Run details

  • nf-core/tools version 2.14.1
  • Run at 2024-08-16 11:13:44

@fasterius fasterius linked an issue Aug 16, 2024 that may be closed by this pull request
MultiQC 1.21 doesn't support genomic_dna section #84
Closed
@fasterius fasterius merged commit 884149d into dev Aug 16, 2024
8 checks passed
@fasterius fasterius deleted the module-updates branch August 16, 2024 11:39
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Successfully merging this pull request may close these issues.

MultiQC 1.21 doesn't support genomic_dna section
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@fasterius