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Move conda check to script section #656

Merged
merged 2 commits into from
Nov 9, 2023
Merged

Move conda check to script section #656

merged 2 commits into from
Nov 9, 2023

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d4straub
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@d4straub d4straub commented Nov 7, 2023 •
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Moved the conda check to script section to avoid any problems when running with conda, see nf-core/modules#3683

  • Moved conda-check to script-section
  • replaced exit 1 with error()

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/ampliseq 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).

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github-actions bot commented Nov 7, 2023 •
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit da06524

+| ✅ 154 tests passed       |+
#| ❔   3 tests were ignored |#
!| ❗   2 tests had warnings |!

❗ Test warnings:

  • readme - README did not have a Nextflow minimum version badge.
  • schema_lint - Parameter input is not defined in the correct subschema (input_output_options)

❔ Tests ignored:

✅ Tests passed:

Run details

  • nf-core/tools version 2.10
  • Run at 2023-11-09 07:19:51

@d4straub
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d4straub commented Nov 9, 2023

Thanks!

@d4straub d4straub merged commit 35e980f into nf-core:dev Nov 9, 2023
17 checks passed
@d4straub d4straub deleted the move-conda-checks branch November 9, 2023 10:07
@d4straub d4straub mentioned this pull request Nov 13, 2023
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@FriederikeHanssen FriederikeHanssen FriederikeHanssen approved these changes

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@d4straub @FriederikeHanssen