update_configs_manifest.yml

name: Update configuration files with the manifest information from ZeroCostDL4Mic
on:
  # At 06:00 AM of every day
  schedule:
      - cron: "0 6 * * *"
  workflow_dispatch:

jobs:
  update_configuration:
    name: Update configuration files with the manifest information from ZeroCostDL4Mic
    runs-on: [self-hosted, dl4miceverywhere-builder]
    steps:
      - name: Clone DL4MicEverywhere repository
        uses: actions/checkout@v4
        with:
            path: DL4MicEverywhere 
      - name: Clone ZeroCostDL4Mic repository
        uses: actions/checkout@v4
        with:
            repository: HenriquesLab/ZeroCostDL4Mic
            path: ZeroCostDL4Mic
      - uses: actions/setup-python@v5
        with:
          python-version: '3.9'
          cache: 'pip' # caching pip dependencies
      - name: Install requirements
        working-directory: ./DL4MicEverywhere
        run: pip install -r .tools/requirements.txt
      - name: Update all the configurations
        working-directory: ./DL4MicEverywhere
        run: python3 .tools/python_tools/update_with_zc_manifest.py
      - name: Commit the changes
        uses: stefanzweifel/git-auto-commit-action@v5
        with:
          repository: ./DL4MicEverywhere
          commit_message: GitHub Action - Update configurations with manifest from ZeroCostDL4Mic