pyDataPipeline.yaml

name: Python FAIR Data Pipeline
on: [push, workflow_dispatch]
jobs:
  test:
    name: Test ${{ matrix.os }} (Python ${{ matrix.python }})
    runs-on: ${{ matrix.os }}
    strategy:
      matrix:
        os: [windows-latest,ubuntu-latest,macos-latest]
        python: ["3.9", "3.10", "3.x"]
    defaults:
      run:
        shell: bash
    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
    steps:
      - uses: actions/checkout@v4
      - uses: actions/setup-python@v5
        with:
          python-version: ${{ matrix.python }}
      - name: Install Poetry
        uses: snok/install-poetry@v1
        with:
          virtualenvs-create: true
          virtualenvs-in-project: true
      - name: Checkout pySimpleModel
        uses: actions/checkout@v4
        with:
          repository: FAIRDataPipeline/pySimpleModel
          path: pySimpleModel
      - name: Move pySimpleModel
        run: mv pySimpleModel ../pySimpleModel
      - name: Run Tests on Windows
        run: |
          poetry install
          pip3 install fair-cli
          fair registry install
          pip3 install ../pySimpleModel
          fair init --ci
          fair registry start
          fair pull --local data_pipeline_api/ext/SEIRSconfig.yaml
          fair run --local data_pipeline_api/ext/SEIRSconfig.yaml

          poetry run pytest --cov=data_pipeline_api  --cov-report=xml --cov-report=term -s tests/
        if: matrix.os == 'windows-latest'
      - name: Run Tests on other OS
        if: matrix.os != 'windows-latest'
        run: |
          poetry install
          source .venv/bin/activate
          pip install fair-cli
          fair registry install
          pip install ../pySimpleModel
          fair init --ci
          fair registry start
          fair pull --local data_pipeline_api/ext/SEIRSconfig.yaml
          fair run --local data_pipeline_api/ext/SEIRSconfig.yaml

          python3 -m poetry run pytest --cov=data_pipeline_api  --cov-report=xml --cov-report=term -s tests/
      - uses: codecov/codecov-action@v4
        with:
          token: ${{ secrets.CODECOV_TOKEN }}
          files: ./coverage.xml
          fail_ci_if_error: false
          verbose: true
        if: matrix.python == '3.9' && matrix.os == 'ubuntu-latest'