test_example_scripts.yml

name: Test Example Scripts

on:
  push:
    branches: [ main, staging ]
  pull_request:
    branches: [ main, staging]

jobs:
  run-scripts:
    runs-on: 'ubuntu-latest'

    steps:
    - name: Checkout repository
      uses: actions/checkout@v2

    - name: Set up Ruby
      uses: ruby/setup-ruby@v1
      with:
        ruby-version: '3.3'

    - name: Install Ruby dependencies
      run: gem install httparty

    - name: Run Ruby script
      run: ruby examples/fetch_variant_links.rb

    - name: Set up Python
      uses: actions/setup-python@v2
      with:
        python-version: '3.13'

    - name: Install Python dependencies
      run: pip install requests

    - name: Run Python script
      run: python examples/fetch_all_variants.py

    - name: Set up R
      uses: r-lib/actions/setup-r@v2
      with:
        r-version: '4.4'

    - name: Install system dependencies for R packages
      run: |
        sudo apt-get update
        sudo apt-get install -y libcurl4-openssl-dev libssl-dev libxml2-dev

    - name: Run R script
      run: Rscript examples/fetch_acmg_code.R