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release 1.1.2 - canguro #194

Merged
merged 11 commits into from
Mar 25, 2024
Merged

release 1.1.2 - canguro #194

merged 11 commits into from
Mar 25, 2024

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subwaystation
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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/pangenome branch on the nf-core/test-datasets repository.
  • Make sure your code lints (nf-core lint).
  • Ensure the test suite passes (nf-test test main.nf.test -profile test,docker).
  • 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).

The only change of this version: We revert module wfmash to v0.10.4, because the current releases are unstable, not documented, and I don't understand how to set the parameters properly.

It is currently unclear, when a new stable release will become available. People like @baozg or @AndreaGuarracino are evaluating.

@subwaystation
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I am praying this is the last release for my evaluations. Else I will go PUFF.

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github-actions bot commented Mar 25, 2024 •
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit 9b4a2ca

+| ✅ 186 tests passed       |+
#| ❔   1 tests were ignored |#
!| ❗   7 tests had warnings |!

❗ Test warnings:

  • files_exist - File not found: conf/igenomes.config
  • nextflow_config - Config manifest.version should end in dev: 1.1.2
  • readme - README contains the placeholder zenodo.XXXXXXX. This should be replaced with the zenodo doi (after the first release).
  • pipeline_todos - TODO string in README.md: Add full-sized test dataset and amend the paragraph below if applicable
  • pipeline_todos - TODO string in main.nf: Optionally add in-text citation tools to this list.
  • pipeline_todos - TODO string in main.nf: Optionally add bibliographic entries to this list.
  • pipeline_todos - TODO string in main.nf: Only uncomment below if logic in toolCitationText/toolBibliographyText has been filled!

❔ Tests ignored:

  • files_unchanged - File ignored due to lint config: assets/nf-core-pangenome_logo_light.png

✅ Tests passed:

Run details

  • nf-core/tools version 2.13.1
  • Run at 2024-03-25 14:52:16

mashehu
mashehu requested changes Mar 25, 2024
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subwaystation and others added 2 commits March 25, 2024 15:50
@subwaystation @mashehu
Update CHANGELOG.md
dbcd775 
Co-authored-by: Matthias Hörtenhuber <[email protected]>
@subwaystation @mashehu
Update nextflow_schema.json
9b4a2ca 
Co-authored-by: Matthias Hörtenhuber <[email protected]>
@subwaystation subwaystation merged commit 0e8a387 into master Mar 25, 2024
32 checks passed
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@heuermh heuermh heuermh approved these changes

@mashehu mashehu mashehu approved these changes

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@subwaystation @heuermh @mashehu @nf-core-bot