test.yml

name: Run tests
on: [push, pull_request]

jobs:
  tests:
    name: linux-cp${{ matrix.python-version }}-${{ matrix.OPTIONS_NAME }}
    runs-on: ubuntu-latest

    strategy:
      fail-fast: true
      matrix:
        python-version: ["3.9", "3.10", "3.11", "3.12"]
        PIP_FLAGS: [""]
        MINIMUM_REQUIREMENTS: [0]
        include:
          - platform_id: manylinux_x86_64
            python-version: 3.7
            MINIMUM_REQUIREMENTS: 1
            OPTIONS_NAME: "min"

    steps:
      - name: Checkout 🛎️
        uses: actions/checkout@v2
        with:
          persist-credentials: false

      - name: Setup Python
        uses: actions/setup-python@v2
        with:
          python-version: ${{ matrix.python-version}}

      - name: Installation of the package
        shell: bash -l {0}
        run: |
            set -ex
            source .github/workflows/before_install.sh
            set -ex
            make install

      - name: Run the tests
        shell: bash -l {0}
        run: |
            source .github/workflows/test_script.sh 
            # Now, run the HiC-pro example with the corresponding tests.
            pushd examples/HiC-pro
            bash launch_tests.sh
            popd

      - name: Build the documentation
        shell: bash -l {0}
        run: |
            pip install -r requirements/docs.txt
            pushd doc
            # FIXME let's give up on warnings for now
            make html # SPHINXOPTS="-W"
            touch _build/html/.nojekyll