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.

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

Add package: 2021_Orlando_NeoBa #54

Open
wants to merge 3 commits into
base: main
Choose a base branch
from

Conversation

PierreJust
Copy link

@PierreJust PierreJust commented Oct 9, 2024

Linked to #56

PR Checklist

  • Add the appropriate label to your PR (new package or package update).
  • The PR title is in the format Add/update package: {package_name}.
  • The PR description includes a link to the issue requesting the package its
    update. (Add to Linked to #XXX above.)

If adding or updating a package:

  • This PR contains a sequencingSourceFile (.ssf) for the requested
    package.
  • The name of the .ssf file(s) matches the package name (i.e.
    packages/2023_my_package/2023_my_package.ssf).
  • The .ssf file MUST contain a new line at the end of the file.
    A check for this exists in the CI. This check should pass before
    you continue with this list.
  • Comment @delphis-bot create recipe to this pull request to awaken
    Poseidon's trusty helper. (This should be repeated whenever changes are
    made to the SSF file contents).

Delphis-bot will then add a number of files to the PR. Check that they are all
there:

  • The file packages/{package_name}/{package_name}.tsv was added to the PR.
  • The file packages/{package_name}/{package_name}.tsv_patch.sh was added
    to the PR from template.
  • The file packages/{package_name}/script_versions.txt was added to the
    PR.
  • The file packages/{package_name}/{package_name}.config was added to the
    PR from template.

Human validation

Package SSF file (*.ssf)

  • I confirm that the poseidon_IDs, udg, and library_built are filled
    and correct.
  • I made sure to leave notes where necessary to explain any special
    cases/judgement calls made for data entries.

Package TSV file (*.tsv)

  • I confirm that the UDG, Strandedness columns are correct for each
    library.
  • I confirm that the R1_target_file and R2_target_file columns point to
    the correct FastQ files for the library (i.e. consistent with SSF file).

Package config file (*.config)

The template config file includes a few TODO statements, and information about
them. Please ensure that you:

  • I have selected the appropriate config for the CaptureType of the package.
  • If any nf-core/eager parameters need to be altered from their defaults, I
    have added them within the params section at the end of the package
    config file.

@PierreJust PierreJust changed the title 2021_Orlando_NeoBa PJ Add package: 2021_Orlando_NeoBa Oct 11, 2024
@TCLamnidis
Copy link
Member

TCLamnidis commented Nov 22, 2024

@PierreJust This PR requires an issue to be opened, to provide the additional required information (doi, link to publication).

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Projects
None yet
Development

Successfully merging this pull request may close these issues.

2 participants