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remove harsh trimming option --trim #413

Merged
merged 5 commits into from
Oct 2, 2023
Merged

remove harsh trimming option --trim #413

merged 5 commits into from
Oct 2, 2023

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rannick
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@rannick rannick commented Sep 29, 2023 •
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Remove harsh trimming option --trim

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/rnafusion 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).

@rannick rannick self-assigned this Sep 29, 2023
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github-actions bot commented Sep 29, 2023 •
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit 94966e5

+| ✅ 158 tests passed       |+
!| ❗   2 tests had warnings |!

❗ Test warnings:

  • files_exist - File not found: conf/igenomes.config
  • pipeline_todos - TODO string in WorkflowRnafusion.groovy: Optionally add in-text citation tools to this list.

✅ Tests passed:

Run details

  • nf-core/tools version 2.10
  • Run at 2023-10-02 12:36:39

@rannick rannick requested review from fevac and peterpru October 2, 2023 10:38
fevac
fevac approved these changes Oct 2, 2023
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👋 👋 bye bye trim option. Looks good! 🌟 let's run the small test case before merging

@rannick rannick merged commit c64830c into dev Oct 2, 2023
6 checks passed
@rannick rannick deleted the remove_harsh_trimming branch October 2, 2023 13:59
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@fevac fevac fevac approved these changes

@peterpru peterpru Awaiting requested review from peterpru

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@rannick rannick

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@rannick @fevac