python-pytest.yaml

name: Run Pytest

on:
  push:
    branches: [ "main" ]
  pull_request:
    branches: [ "main" ]

jobs:
  build:
    name: Run regression tests
    permissions:
      contents: read
      pull-requests: write
    runs-on: ubuntu-latest
    strategy:
      fail-fast: false
      matrix:
        python-version: ["3.10", "3.11", "3.12", "3.13"]

    steps:
    - uses: actions/checkout@v3
    - name: Set up Python ${{ matrix.python-version }}
      uses: actions/setup-python@v3
      with:
        python-version: ${{ matrix.python-version }}
    - name: Install dependencies
      run: |
        python -m pip install --upgrade pip
        python -m pip install pytest pytest-mock pytest-cov ruff
        pip install .
    - name: Lint with ruff
      run: |
        ruff check --exit-non-zero-on-fix jointly_hic
    - name: Test with pytest
      run: |
        pytest --cov=jointly_hic --cov-report=html --cov-report=term-missing --cov-fail-under=80 --color=yes --verbose tests