build.yml

name: build

on: [push, pull_request]

jobs:
  build:
    runs-on: ${{ matrix.os }}
    strategy:
      max-parallel: 4
      matrix:
        os: [ubuntu-latest, macos-latest]
        python-version: ["3.8", "3.10"]

    steps:
      - uses: actions/checkout@v4

      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v5
        with:
          python-version: ${{ matrix.python-version }}
          cache: 'pip'

      - name: Install BEDTools (Linux)
        run: sudo apt-get install bedtools libmagickwand-dev
        if: matrix.os == 'ubuntu-latest'

      - name: Install BEDTools (macOS)
        run: brew install bedtools imagemagick
        if: matrix.os == 'macos-latest'

      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip
          pip install -e .

      - name: Test with pytest
        run: |
          pip install PyYAML pytest pytest-cov pytest-benchmark mock
          pytest --cov=jcvi tests