tests-tox.yaml

name: Tests
on:
  push:
    branches:
      - master
    paths-ignore:
      - 'docs/**'
      - '*.md'
      - '*.rst'
  pull_request:
    paths-ignore:
      - 'docs/**'
      - '*.md'
      - '*.rst'
jobs:
  tests:
    name: ${{ matrix.name }}
    runs-on: ${{ matrix.os }}
    strategy:
      fail-fast: false
      matrix:
        include:
          - {name: '3.12', python: '3.12', os: ubuntu-latest, tox: py312}
          - {name: '3.12-MacOS', python: '3.12', os: macos-latest, tox: py312}
          - {name: '3.11', python: '3.11', os: ubuntu-latest, tox: py311}
          - {name: '3.11-min', python: '3.11', os: ubuntu-latest, tox: "py311-min"}
          - {name: '3.10', python: '3.10', os: ubuntu-latest, tox: py310}
          - {name: '3.9', python: '3.9', os: ubuntu-latest, tox: py39}
          - {name: '3.9-min', python: '3.9', os: ubuntu-latest, tox: "py39-min"}
          - {name: '3.8', python: '3.8', os: ubuntu-latest, tox: py38}
          - {name: '3.8-MacOS', python: '3.8', os: macos-latest, tox: py38}
          - {name: Typing, python: '3.12', os: ubuntu-latest, tox: typing}
    steps:
      - uses: actions/checkout@v4
      - uses: actions/setup-python@v5
        with:
          python-version: ${{ matrix.python }}
          cache: 'pip'
          cache-dependency-path: 'requirements/*.txt'
      - name: Update pip
        run: |
          pip install -U setuptools wheel
          python -m pip install -U pip
      - name: Install Linux dependencies
        if: runner.os == 'Linux'
        run: |
          sudo apt-get update
          sudo apt-get install -y liblzma-dev python3-dev r-bioc-dnacopy zlib1g-dev
      - name: Install Mac OS dependencies
        if: runner.os == 'macOS'
        run: |
          Rscript --no-environ -e "install.packages('BiocManager', repos='https://cloud.r-project.org'); BiocManager::install('DNAcopy')"
      - name: Install test runner tools
        run: pip install flake8 pytest tox
      - name: Lint with flake8
        run: |
          # Stop the build if there are Python syntax errors or undefined names
          flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
      - name: Cache mypy
        if: matrix.tox == 'typing'
        uses: actions/cache@v4
        with:
          path: ./.mypy_cache
          key: mypy|${{ matrix.python }}|${{ hashFiles('pyproject.toml') }}
      - name: Run the unit test suite
        run: tox -e ${{ matrix.tox }}