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Important! Template update for nf-core/tools v2.13 #1414

Merged
merged 3 commits into from
Feb 21, 2024
Merged

Important! Template update for nf-core/tools v2.13 #1414

merged 3 commits into from
Feb 21, 2024

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Version 2.13 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 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 release page.

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github-actions bot commented Feb 21, 2024 •
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit d49b53e

+| ✅ 182 tests passed       |+
#| ❔  13 tests were ignored |#
!| ❗   4 tests had warnings |!

❗ Test warnings:

  • pipeline_todos - TODO string in WorkflowSarek.groovy: Optionally add in-text citation tools to this list.
  • 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: .github/workflows/awsfulltest.yml
  • files_exist - File is ignored: .github/workflows/awstest.yml
  • files_exist - File is ignored: conf/modules.config
  • files_exist - File is ignored: lib/WorkflowMain.groovy
  • files_exist - File is ignored: lib/NfcoreTemplate.groovy
  • files_exist - File is ignored: lib/WorkflowSarek.groovy
  • files_unchanged - File ignored due to lint config: assets/nf-core-sarek_logo_light.png
  • files_unchanged - File ignored due to lint config: docs/images/nf-core-sarek_logo_light.png
  • files_unchanged - File ignored due to lint config: docs/images/nf-core-sarek_logo_dark.png
  • files_unchanged - File ignored due to lint config: .gitignore or .prettierignore or pyproject.toml
  • actions_ci - actions_ci
  • actions_awstest - 'awstest.yml' workflow not found: /home/runner/work/sarek/sarek/.github/workflows/awstest.yml
  • template_strings - template_strings

✅ Tests passed:

Run details

  • nf-core/tools version 2.13
  • Run at 2024-02-21 17:56:11

@maxulysse maxulysse force-pushed the nf-core-template-merge-2.13 branch from e4ed18d to bc6b005 Compare February 21, 2024 16:38
FriederikeHanssen
FriederikeHanssen approved these changes Feb 21, 2024
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@FriederikeHanssen FriederikeHanssen left a comment

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Thanks a lot

@FriederikeHanssen FriederikeHanssen merged commit 1d4a3f7 into dev Feb 21, 2024
25 checks passed
@maxulysse maxulysse deleted the nf-core-template-merge-2.13 branch February 21, 2024 18:24
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@FriederikeHanssen FriederikeHanssen FriederikeHanssen approved these changes

@maxulysse maxulysse maxulysse approved these changes

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@nf-core-bot @maxulysse @FriederikeHanssen