update-genome-count.yml

name: Update Genome count
on:
  workflow_dispatch:
  schedule:
    - cron: '00 23 * * 0'

permissions:
  contents: write
  pull-requests: write

jobs:
  update-citations:
    runs-on: ubuntu-latest
    steps:
      - name: Checkout Branch
        uses: actions/checkout@v6

      - name: Setup Python
        uses: actions/setup-python@v6
        with:
          python-version: '3.12'

      - name: Install dependencies
        run:  pip install pandas

      - name: Run update script
        run: python annotate_genome_count.py

      - name: Create Pull Request
        uses: peter-evans/create-pull-request@v8
        with:
            commit-message: Update VGP/ERGA Genome count
            title: Update VGP/ERGA Genome count
            body: |
              This is an auto-generated PR with the updated `genome count` of the [Galaxy Assembly](https://assembly.usegalaxy.eu) site.
            branch: update-genome-count
            delete-branch: true