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Important! Template update for nf-core/tools v2.13.1 #1229

Merged
merged 5 commits into from
Mar 1, 2024
Merged

Important! Template update for nf-core/tools v2.13.1 #1229

merged 5 commits into from
Mar 1, 2024

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nf-core-bot
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Version 2.13.1 of nf-core/tools has just been released with updates to the nf-core template. This automated pull-request attempts to apply the relevant updates to this pipeline.

Please make sure to merge this pull-request as soon as possible, resolving any merge conflicts in the nf-core-template-merge-2.13.1 branch (or your own fork, if you prefer). Once complete, make a new minor release of your pipeline.

For instructions on how to merge this PR, please see https://nf-co.re/docs/contributing/sync/.

For more information about this release of nf-core/tools, please see the v2.13.1 release page.

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github-actions bot commented Mar 1, 2024 •
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit a357229

+| ✅ 169 tests passed       |+
#| ❔   8 tests were ignored |#
!| ❗   7 tests had warnings |!

❗ Test warnings:

  • files_exist - File not found: assets/multiqc_config.yml
  • files_exist - File not found: .github/workflows/awstest.yml
  • files_exist - File not found: .github/workflows/awsfulltest.yml
  • 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
  • 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!

❔ Tests ignored:

  • files_exist - File is ignored: conf/modules.config
  • nextflow_config - Config default ignored: params.ribo_database_manifest
  • files_unchanged - File ignored due to lint config: .github/PULL_REQUEST_TEMPLATE.md
  • files_unchanged - File ignored due to lint config: assets/email_template.html
  • files_unchanged - File ignored due to lint config: assets/email_template.txt
  • files_unchanged - File ignored due to lint config: .gitignore or .prettierignore or pyproject.toml
  • actions_awstest - 'awstest.yml' workflow not found: /home/runner/work/rnaseq/rnaseq/.github/workflows/awstest.yml
  • multiqc_config - 'assets/multiqc_config.yml' not found

✅ Tests passed:

Run details

  • nf-core/tools version 2.13.1
  • Run at 2024-03-01 11:47:58

drpatelh
drpatelh reviewed Mar 1, 2024
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@drpatelh drpatelh left a comment

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Thanks! Can you update the CHANGELOG with this PR please and also include the bump in MultiQC version there.

@drpatelh drpatelh merged commit d9beefa into dev Mar 1, 2024
27 checks passed
@maxulysse maxulysse deleted the nf-core-template-merge-2.13.1 branch May 29, 2024 14:47
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@maxulysse maxulysse maxulysse left review comments

@drpatelh drpatelh drpatelh approved these changes

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@nf-core-bot @maxulysse @drpatelh