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Supporting alteration for the template and PR suggestions #209

Merged
merged 18 commits into from
Apr 5, 2022
Merged

Supporting alteration for the template and PR suggestions #209

merged 18 commits into from
Apr 5, 2022

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marissaDubbelaar
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@marissaDubbelaar marissaDubbelaar commented Apr 5, 2022

This PR includes the following changes:

  • Minor template alterations
  • Removal of commented code
  • PublishDir mode from copy to params.publish_dir_mode,
  • Update the multiQC module
  • Removal of default result directory

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/mhcquant 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).
  • 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 Apr 5, 2022

nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit 3762874

+| ✅ 145 tests passed       |+
!| ❗   2 tests had warnings |!

❗ Test warnings:

✅ Tests passed:

Run details

  • nf-core/tools version 2.3.2
  • Run at 2022-04-05 09:29:54

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@d4straub d4straub left a comment

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LGTM

Seems like changing .nf-core.yml was not on your agenda?

@@ -16,12 +15,17 @@
### `Fixed`

- Typo in previous release date
- [#208](https://github.com/nf-core/mhcquant/pull/208) - nf-core template update (version 2.3.2)
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I doubt that. It is not appearing in the list of changes and #204 should be closed after you have synced the template update into dev. Did you follow https://nf-co.re/developers/sync#merging-automated-prs?

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For the changelog, I pulled the TEMPLATE to my own branch, but I already did a lot of changes before but that was manual 😅 .

Regarding the change of the .nf-core.yml, that will be addressed after this PR 😄
Since you already made the suggestion for it, I will accept that from there

@marissaDubbelaar marissaDubbelaar merged commit 6c4b3bb into nf-core:dev Apr 5, 2022
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3 participants