test.yml

name: Test

on:
  - push
  - pull_request

jobs:

  test_linux:
    name: Test (Linux)
    runs-on: ubuntu-latest
    env:
      OS: Linux
    strategy:
      matrix:
        include:
        - python-version: 3.7
          python-release: v3.7
          python-impl: CPython
        - python-version: 3.8
          python-release: v3.8
          python-impl: CPython
        - python-version: 3.9
          python-release: v3.9
          python-impl: CPython
        - python-version: '3.10'
          python-release: v3.10
          python-impl: CPython
        - python-version: 3.11
          python-release: v3.11
          python-impl: CPython
        - python-version: 3.12
          python-release: v3.12
          python-impl: CPython
        - python-version: 3.13
          python-release: v3.13
          python-impl: CPython
        - python-version: pypy-3.7
          python-release: v3.7
          python-impl: PyPy
        - python-version: pypy-3.8
          python-release: v3.8
          python-impl: PyPy
        - python-version: pypy-3.9
          python-release: v3.9
          python-impl: PyPy
        - python-version: pypy-3.10
          python-release: v3.10
          python-impl: PyPy
    steps:
    - name: Checkout code
      uses: actions/checkout@v1
    - name: Install BLAST+ binaries
      run: sudo apt-get install ncbi-blast+
    - name: Setup Python ${{ matrix.python-version }}
      uses: actions/setup-python@v2
      with:
        python-version: ${{ matrix.python-version }}
    - name: Update pip
      run: python -m pip install -U pip wheel setuptools
    - name: Install CI requirements
      run: python -m pip install coverage
    - name: Install library
      run: pip install .
    - name: Test with coverage
      run: python -m coverage run --source=orthoani -m unittest discover -v
    - name: Convert coverage report
      run: python -m coverage xml
    - name: Upload coverage to Codecov
      uses: codecov/codecov-action@v1
      with:
        flags: ${{ matrix.python-impl }},${{ matrix.python-release }},${{ env.OS }}
        name: test-python-${{ matrix.python-version }}
        fail_ci_if_error: true
        token: ${{ secrets.CODECOV_TOKEN }}