template_version_comment.yml

name: nf-core template version comment
# This workflow is triggered on PRs to check if the pipeline template version matches the latest nf-core version.
# It posts a comment to the PR, even if it comes from a fork.

on: pull_request_target

jobs:
  template_version:
    runs-on: ubuntu-latest
    steps:
      - name: Check out pipeline code
        uses: actions/checkout@0ad4b8fadaa221de15dcec353f45205ec38ea70b # v4
        with:
          ref: ${{ github.event.pull_request.head.sha }}

      - name: Read template version from .nf-core.yml
        uses: nichmor/minimal-read-yaml@v0.0.2
        id: read_yml
        with:
          config: ${{ github.workspace }}/.nf-core.yml

      - name: Install nf-core
        run: |
          python -m pip install --upgrade pip
          pip install nf-core==${{ steps.read_yml.outputs['nf_core_version'] }}

      - name: Check nf-core outdated
        id: nf_core_outdated
        run: echo "OUTPUT=$(pip list --outdated | grep nf-core)" >> ${GITHUB_ENV}

      - name: Post nf-core template version comment
        uses: mshick/add-pr-comment@b8f338c590a895d50bcbfa6c5859251edc8952fc # v2
        if: |
          contains(env.OUTPUT, 'nf-core')
        with:
          repo-token: ${{ secrets.NF_CORE_BOT_AUTH_TOKEN }}
          allow-repeats: false
          message: |
            > [!WARNING]
            > Newer version of the nf-core template is available.
            >
            > Your pipeline is using an old version of the nf-core template: ${{ steps.read_yml.outputs['nf_core_version'] }}.
            > Please update your pipeline to the latest version.
            >
            > For more documentation on how to update your pipeline, please see the [nf-core documentation](https://github.com/nf-core/tools?tab=readme-ov-file#sync-a-pipeline-with-the-template) and [Synchronisation documentation](https://nf-co.re/docs/contributing/sync).
          #