update-dalia-csv.yml

name: Update DALIA CSV on Resource Change

on:
  pull_request:
    paths:
      - 'resources/nfdi4bioimage.yml' 

jobs:
  update-dalia-csv:
    runs-on: ubuntu-latest
    steps:
      # Checkout repository
      - name: Checkout repository
        uses: actions/checkout@v2

      # Set up Python environment
      - name: Set up Python
        uses: actions/setup-python@v4
        with:
          python-version: '3.x'

      # Install dependencies
      - name: Install dependencies
        run: |
          pip install -r requirements.txt
          pip install nbconvert transformers torch
          sudo apt-get install -y poppler-utils

      # Execute the Notebook to export CSV in DALIA format
      - name: Execute Jupyter Notebook
        run: |
          jupyter nbconvert --execute --inplace scripts/Export_to_DALIA.ipynb

      # Commit and push changes if any file was updated
      - name: Commit and push changes
        run: |
          git config --global user.name "github-actions[bot]"
          git config --global user.email "github-actions[bot]@users.noreply.github.com"

          git add .
          git diff --staged --quiet || git commit -m "Auto-update CSV after modifying nfdi4bioimage.yml"
          
          git pull --rebase origin ${{ github.head_ref }}
          
          # Authenticate and push
          git push https://x-access-token:${{ secrets.GITHUB_TOKEN }}@github.com/${{ github.repository }}.git HEAD:${{ github.head_ref }}