Skip to content

adding airrc reference#459

Merged
ggabernet merged 6 commits into
nf-core:devfrom
ayeletperes:airrc-ref
May 12, 2026
Merged

adding airrc reference#459
ggabernet merged 6 commits into
nf-core:devfrom
ayeletperes:airrc-ref

Conversation

@ayeletperes
Copy link
Copy Markdown

…ignGenes configuration.

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/airrflow branch on the nf-core/test-datasets repository.
  • Make sure your code lints (nf-core pipelines lint).
  • Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
  • 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).

@nf-core-bot
Copy link
Copy Markdown
Member

Warning

Newer version of the nf-core template is available.

Your pipeline is using an old version of the nf-core template: 3.5.1.
Please update your pipeline to the latest version.

For more documentation on how to update your pipeline, please see the nf-core documentation and Synchronisation documentation.

@ayeletperes
Copy link
Copy Markdown
Author

@ggabernet

@ggabernet ggabernet self-requested a review April 30, 2026 17:39
Comment thread bin/fetch_references.sh
@@ -0,0 +1,231 @@
#!/usr/bin/env bash
Copy link
Copy Markdown
Member

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Nice, thanks for cleaning this up as well!

Copy link
Copy Markdown
Member

@ggabernet ggabernet left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Looks good to me, thanks for the implementation! Let's merge and we will fix the tests in the last PR to dev

@ggabernet
Copy link
Copy Markdown
Member

Merging, we will fix the nf-tests snapshot due to versions changes in the last PR to dev

@ggabernet ggabernet merged commit bbbda4e into nf-core:dev May 12, 2026
11 of 21 checks passed
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels

None yet

Projects

None yet

Development

Successfully merging this pull request may close these issues.

3 participants