python-app.yaml

# This workflow will install Python dependencies, run tests and lint with a single version of Python
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions

name: Tests
on:
  push:
    branches: [ main ]
  pull_request:
    branches: [ main ]
env:
  NUMBA_DISABLE_JIT: 1
jobs:
  build:
    runs-on: ubuntu-latest
    strategy:
      matrix:
        python-version: ["3.9", "3.10", "3.11"]
    steps:
    - uses: actions/checkout@v4
    - name: provision-with-micromamba
      uses: mamba-org/provision-with-micromamba@main
      with:
        environment-file: .github/environment.yaml
        environment-name: test-environment
        cache-downloads: True
        cache-env: true
    - name: Lint with flake8
      shell: bash -l {0}
      run: |
        # stop the build if there are Python syntax errors or undefined names
        pip install flake8
        flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
        flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
    - name: Test with pytest
      shell: bash -l {0}
      env:
        NUMBA_DISABLE_JIT: 1
      run: |
        python -m pip install build
        python -m build
        python -m pip install dist/*.whl
        pip install pytest
        pip install pytest-cov
        pytest --cov=pycoxmunk pycoxmunk/Tests/ --cov-report=xml

    - name: Upload unittest coverage to Codecov
      uses: codecov/codecov-action@v4
      with:
        flags: unittests
        file: ./coverage.xml
        env_vars: OS,PYTHON_VERSION
        name: codecov-umbrella # optional
        fail_ci_if_error: true # optional (default = false)
        verbose: true