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separate pytest from nftest #1289

Merged
merged 1 commit into from
Oct 17, 2023
Merged

separate pytest from nftest #1289

merged 1 commit into from
Oct 17, 2023

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adamrtalbot
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@adamrtalbot adamrtalbot commented Oct 17, 2023 •
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  • Separate pytest from nf-test tags files

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/sarek 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).

@adamrtalbot adamrtalbot force-pushed the separate_pytest_from_nftest branch from 518a942 to 15ee939 Compare October 17, 2023 10:54
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github-actions bot commented Oct 17, 2023 •
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit 15ee939

+| ✅ 144 tests passed       |+
#| ❔   9 tests were ignored |#
!| ❗   1 tests had warnings |!

❗ Test warnings:

  • pipeline_todos - TODO string in WorkflowSarek.groovy: Optionally add in-text citation tools to this list.

❔ Tests ignored:

  • files_exist - File is ignored: .github/workflows/awsfulltest.yml
  • files_exist - File is ignored: conf/modules.config
  • 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: lib/NfcoreTemplate.groovy
  • files_unchanged - File ignored due to lint config: .gitignore or .prettierignore or pyproject.toml
  • actions_ci - actions_ci
  • template_strings - template_strings

✅ Tests passed:

Run details

  • nf-core/tools version 2.10
  • Run at 2023-10-17 10:56:43

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@maxulysse @FriederikeHanssen I have changed branch protection to match the new tests.

@maxulysse maxulysse merged commit 2c1194c into nf-core:dev Oct 17, 2023
10 checks passed
@adamrtalbot adamrtalbot deleted the separate_pytest_from_nftest branch October 17, 2023 11:56
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@maxulysse maxulysse maxulysse approved these changes

@FriederikeHanssen FriederikeHanssen Awaiting requested review from FriederikeHanssen FriederikeHanssen is a code owner

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