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Fix full test manual trigger following https://github.com/nf-core/met… #704

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merged 1 commit into from
Oct 24, 2024
Merged

Fix full test manual trigger following https://github.com/nf-core/met… #704

merged 1 commit into from
Oct 24, 2024

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@jfy133 jfy133 commented Oct 24, 2024

…hylseq/commit/d7578f04cbd0c345fc26e219baf8c72316981af7#diff-2a52eee8221e07d380971fc23f7f5150f1ceffcf36455d27033ce79f9818c636R28

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/mag 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).

@jfy133 jfy133 merged commit babacaa into dev Oct 24, 2024
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@jfy133 jfy133 deleted the jfy133-patch-1 branch October 24, 2024 17:16
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nf-core pipelines lint overall result: Passed ✅ ⚠️

Posted for pipeline commit c7f3071

+| ✅ 318 tests passed       |+
#| ❔   2 tests were ignored |#
!| ❗   6 tests had warnings |!

❗ Test warnings:

  • nextflow_config - Config manifest.version should end in dev: 3.2.0
  • pipeline_todos - TODO string in main.nf: Remove this line if you don't need a FASTA file [TODO: try and test using for --host_fasta and --host_genome]
  • 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:

✅ Tests passed:

Run details

  • nf-core/tools version 3.0.2
  • Run at 2024-10-24 17:19:30

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