Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Activate multiqc ai summaries #1495

Open
wants to merge 4 commits into
base: dev
Choose a base branch
from
Open

Activate multiqc ai summaries #1495

wants to merge 4 commits into from

Conversation

pinin4fjords
Copy link
Member

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/rnaseq 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).

@pinin4fjords
feat: add MultiQC AI summaries support
efd25a2 
Add support for MultiQC's AI-powered summaries feature via new parameter: - Add enable_multiqc_ai boolean parameter to schema - Add --ai flag to MultiQC args when enabled - Use nf-core standard array syntax for MultiQC args
@pinin4fjords
feat: Add MultiQC AI summary options with type selection
41b2187
@pinin4fjords
feat: Add Seqera access token configuration for MultiQC AI
fade208
@nf-core-bot
Copy link
Member

Warning

Newer version of the nf-core template is available.

Your pipeline is using an old version of the nf-core template: 3.0.2.
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.

@github-actions GitHub Actions
Copy link

github-actions bot commented Jan 24, 2025 •
edited
Loading

nf-core pipelines lint overall result: Failed ❌

Posted for pipeline commit d2903c9

+| ✅ 188 tests passed       |+
#| ❔   9 tests were ignored |#
!| ❗   8 tests had warnings |!
-| ❌   1 tests failed       |-

❌ Test failures:

  • schema_params - Param multiqc_ai_type from nextflow config not found in nextflow_schema.json

❗ Test warnings:

  • files_exist - File not found: assets/multiqc_config.yml
  • files_exist - File not found: .github/workflows/awstest.yml
  • files_exist - File not found: .github/workflows/awsfulltest.yml
  • pipeline_todos - TODO string in base.config: Check the defaults for all processes
  • pipeline_todos - TODO string in methods_description_template.yml: #Update the HTML below to your preferred methods description, e.g. add publication citation for this pipeline
  • 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:

✅ Tests passed:

Run details

  • nf-core/tools version 3.0.2
  • Run at 2025-01-24 18:13:05

@pinin4fjords
Copy link
Member Author

Needs nf-core/modules#7364

@pinin4fjords
Copy link
Member Author

@nf-core-bot fix linting

@pinin4fjords
Copy link
Member Author

@nf-core-bot fix linting

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Reviewers
No reviews
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

Successfully merging this pull request may close these issues.
2 participants
@pinin4fjords @nf-core-bot