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Updated nf-core/template to 3.0.1 #151

Merged
merged 6 commits into from
Oct 10, 2024
Merged

Updated nf-core/template to 3.0.1 #151

merged 6 commits into from
Oct 10, 2024

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GallVp
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@GallVp GallVp commented Oct 9, 2024

PR checklist

  • Updated nf-core/template to 3.0.1
  • 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
  • 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 Oct 9, 2024

nf-core pipelines lint overall result: Passed ✅ ⚠️

Posted for pipeline commit d7f6715

+| ✅ 201 tests passed       |+
#| ❔  30 tests were ignored |#
!| ❗   1 tests had warnings |!

❗ Test warnings:

  • schema_lint - Schema $id should be https://raw.githubusercontent.com/plant-food-research-open/assemblyqc/master/nextflow_schema.json
    Found https://raw.githubusercontent.com/plant-food-research-open/assemblyqc/main/nextflow_schema.json

❔ Tests ignored:

  • files_exist - File is ignored: conf/igenomes.config
  • files_exist - File is ignored: conf/igenomes_ignored.config
  • files_exist - File is ignored: assets/multiqc_config.yml
  • files_exist - File is ignored: CODE_OF_CONDUCT.md
  • files_exist - File is ignored: assets/nf-core-assemblyqc_logo_light.png
  • files_exist - File is ignored: docs/images/nf-core-assemblyqc_logo_light.png
  • files_exist - File is ignored: docs/images/nf-core-assemblyqc_logo_dark.png
  • files_exist - File is ignored: .github/ISSUE_TEMPLATE/config.yml
  • files_exist - File is ignored: .github/workflows/awstest.yml
  • files_exist - File is ignored: .github/workflows/awsfulltest.yml
  • nextflow_config - Config variable ignored: manifest.name
  • nextflow_config - Config variable ignored: manifest.homePage
  • nextflow_config - Config variable ignored: validation.help.beforeText
  • nextflow_config - Config variable ignored: validation.help.afterText
  • nextflow_config - Config variable ignored: validation.summary.beforeText
  • nextflow_config - Config variable ignored: validation.summary.afterText
  • files_unchanged - File does not exist: CODE_OF_CONDUCT.md
  • files_unchanged - File ignored due to lint config: LICENSE or LICENSE.md or LICENCE or LICENCE.md
  • files_unchanged - File ignored due to lint config: .github/CONTRIBUTING.md
  • files_unchanged - File does not exist: .github/ISSUE_TEMPLATE/config.yml
  • files_unchanged - File ignored due to lint config: .github/PULL_REQUEST_TEMPLATE.md
  • files_unchanged - File ignored due to lint config: .github/workflows/branch.yml
  • files_unchanged - File ignored due to lint config: .github/workflows/linting.yml
  • files_unchanged - File does not exist: assets/nf-core-assemblyqc_logo_light.png
  • files_unchanged - File does not exist: docs/images/nf-core-assemblyqc_logo_light.png
  • files_unchanged - File does not exist: docs/images/nf-core-assemblyqc_logo_dark.png
  • files_unchanged - File ignored due to lint config: docs/README.md
  • actions_awstest - 'awstest.yml' workflow not found: /home/runner/work/assemblyqc/assemblyqc/.github/workflows/awstest.yml
  • template_strings - template_strings
  • multiqc_config - multiqc_config

✅ Tests passed:

Run details

  • nf-core/tools version 3.0.1
  • Run at 2024-10-09 23:59:19

@GallVp GallVp merged commit 68444ef into dev Oct 10, 2024
8 of 9 checks passed
@GallVp GallVp deleted the update/template301 branch October 10, 2024 00:08
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