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

added nanolyse to subworkflow for qc #258

Open
wants to merge 1 commit into
base: dev
Choose a base branch
from
Open

added nanolyse to subworkflow for qc #258

wants to merge 1 commit into from

Conversation

RareSeas-Asimov
Copy link

PR checklist

  • [ X] Added Nanolyse to qc
  • 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/nanoseq 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).

@github-actions GitHub Actions
Copy link

This PR is against the master branch ❌

  • Do not close this PR
  • Click Edit and change the base to dev
  • This CI test will remain failed until you push a new commit

Hi @RareSeas-Asimov,

It looks like this pull-request is has been made against the RareSeas-Asimov/nanoseq master branch.
The master branch on nf-core repositories should always contain code from the latest release.
Because of this, PRs to master are only allowed if they come from the RareSeas-Asimov/nanoseq dev branch.

You do not need to close this PR, you can change the target branch to dev by clicking the "Edit" button at the top of this page.
Note that even after this, the test will continue to show as failing until you push a new commit.

Thanks again for your contribution!

@RareSeas-Asimov RareSeas-Asimov changed the base branch from master to dev November 29, 2023 17:55
@github-actions GitHub Actions
Copy link

github-actions bot commented Nov 29, 2023 •
edited

nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit 83f4192

+| ✅ 156 tests passed       |+
!| ❗   4 tests had warnings |!

❗ Test warnings:

  • nextflow_config - Config manifest.version should end in dev: '3.1.0'
  • pipeline_todos - TODO string in base.config: Customise requirements for specific processes.
  • pipeline_todos - TODO string in methods_description_template.yml: #Update the HTML below to your prefered methods description, e.g. add publication citation for this pipeline
  • pipeline_todos - TODO string in awsfulltest.yml: You can customise AWS full pipeline tests as required

✅ Tests passed:

Run details

  • nf-core/tools version 2.7.2
  • Run at 2023-11-29 20:25:06

@yuukiiwa
Copy link
Contributor

yuukiiwa commented Nov 29, 2023 •
edited

Hi Adelaide (tagging you here @RareSeas-Asimov),

Thanks for the PR! But I don't think this is where your PR should be merged because this changes the nf-core/modules incorporated, which will make the pipeline not pass nf-core linting.

You should instead create three PRs in nf-core/modules: two to update the versions of the nanolyse and nanoplot modules and one to add a subworkflow for both nanolyse and nanoplot.

Thanks!

Best wishes,
Yuk Kei

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.

None yet
2 participants
@RareSeas-Asimov @yuukiiwa