integration-test.yml

name : Integration Tests
on :
  # allow manual triggering
  workflow_dispatch:

  schedule:
    # run Thursday 4:30 AM UTC
  - cron: '30 4 * * 4'
jobs:
  test:
    runs-on: ubuntu-latest

    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
      PGHOST: postgres

    services:
      postgres:
        image: mdillon/postgis:9.5
        options: --health-cmd pg_isready --health-interval 10s --health-timeout 5s --health-retries 5

    container:
      image: pecan/base:develop

    steps:
    - name: Checkout source code
      uses: actions/checkout@v4

    # initialize database
    - name: db setup
      uses: docker://pecan/db:ci

    - name: Run tests
      run: |
        for FILE in modules/data.atmosphere/inst/integrationTests/*; do
          if echo "$FILE" | grep -q "ERA5"; then
            echo "Skipping file : $FILE"
          else
            Rscript "$FILE"
          fi
        done

    - name: Run modular pipeline integration test
      run: Rscript modules/uncertainty/inst/integrationTests/test.modular.chain.R