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create empty -QC-indels.csv file if alignments not found - fix AWS megatests #138

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merged 3 commits into from May 17, 2024
Merged

create empty -QC-indels.csv file if alignments not found - fix AWS megatests #138

merged 3 commits into from May 17, 2024

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mirpedrol
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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/crisprseq 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>).
  • 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 May 7, 2024 •
edited

nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit e0c3e2d

+| ✅ 177 tests passed       |+
#| ❔   3 tests were ignored |#
!| ❗   5 tests had warnings |!

❗ Test warnings:

  • nextflow_config - Config manifest.version should end in dev: 2.2.0
  • pipeline_todos - TODO string in main.nf: Optionally add in-text citation tools to this list.
  • pipeline_todos - TODO string in main.nf: Optionally add bibliographic entries to this list.
  • pipeline_todos - TODO string in main.nf: Only uncomment below if logic in toolCitationText/toolBibliographyText has been filled!
  • pipeline_todos - TODO string in methods_description_template.yml: #Update the HTML below to your preferred methods description, e.g. add publication citation for this pipeline

❔ Tests ignored:

  • files_exist - File is ignored: conf/test.config
  • files_exist - File is ignored: conf/test_full.config
  • files_unchanged - File ignored due to lint config: .github/PULL_REQUEST_TEMPLATE.md

✅ Tests passed:

Run details

  • nf-core/tools version 2.13.1
  • Run at 2024-05-07 10:52:38

@mirpedrol
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@nf-core-bot fix linting

@mirpedrol mirpedrol merged commit afc1de8 into nf-core:dev May 17, 2024
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@LaurenceKuhl LaurenceKuhl LaurenceKuhl approved these changes

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@mirpedrol @LaurenceKuhl @nf-core-bot