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Add package: 2023_Ferraz_NatureEcologyEvolution #41

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merged 6 commits into from
Nov 5, 2024

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EleniSef
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@EleniSef EleniSef commented Jun 16, 2024

Linked to #4

#4 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.

@EleniSef EleniSef closed this Jun 16, 2024
@EleniSef EleniSef reopened this Jun 16, 2024
@EleniSef EleniSef changed the title Added SSF for 2023_Ferraz_NatureEcologyEvolution Add package: 2023_Ferraz_NatureEcologyEvolution Jun 16, 2024
@EleniSef EleniSef marked this pull request as draft June 16, 2024 15:00
@EleniSef
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@delphis-bot create recipe

@EleniSef EleniSef marked this pull request as ready for review June 16, 2024 15:02
@EleniSef EleniSef marked this pull request as draft June 16, 2024 15:10
@EleniSef EleniSef marked this pull request as ready for review June 16, 2024 15:29
@EleniSef EleniSef marked this pull request as draft June 25, 2024 13:53
@EleniSef EleniSef marked this pull request as ready for review June 25, 2024 13:53
@TCLamnidis
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@delphis-bot create recipe

@TCLamnidis
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TCLamnidis commented Nov 5, 2024

@delphis-bot create recipe
To update package configs to the latest versions

@TCLamnidis TCLamnidis merged commit 7c3d377 into poseidon-framework:main Nov 5, 2024
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2 participants