intensity-normalization/.github/workflows/tests.yml at master · jcreinhold/intensity-normalization · GitHub

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name: Tests

on:
  push:
    branches: [master, main]
  pull_request:
    branches: [master, main]

permissions:
  contents: read

jobs:
  test:
    name: Python ${{ matrix.python-version }} on ${{ matrix.os }}
    runs-on: ${{ matrix.os }}
    strategy:
      fail-fast: false
      matrix:
        os: [ubuntu-latest, macos-latest, windows-latest]
        python-version: ["3.11", "3.12", "3.13"]

    steps:
      - uses: actions/checkout@v4

      - name: Install uv
        uses: astral-sh/setup-uv@v4
        with:
          enable-cache: true
          cache-dependency-glob: "uv.lock"

      - name: Set up Python ${{ matrix.python-version }}
        run: uv python install ${{ matrix.python-version }}

      - name: Install dependencies
        run: uv sync --dev

      - name: Run tests with coverage
        run: uv run pytest --cov=intensity_normalization --cov-report=xml --cov-report=term-missing

      - name: Upload coverage to Codecov
        if: matrix.os == 'ubuntu-latest' && matrix.python-version == '3.12'
        uses: codecov/codecov-action@v4
        with:
          token: ${{ secrets.CODECOV_TOKEN }}
          file: ./coverage.xml
          fail_ci_if_error: false

  lint:
    name: Lint
    runs-on: ubuntu-latest
    steps:
      - uses: actions/checkout@v4

      - name: Install uv
        uses: astral-sh/setup-uv@v4
        with:
          enable-cache: true
          cache-dependency-glob: "uv.lock"

      - name: Set up Python
        run: uv python install 3.12

      - name: Install dependencies
        run: uv sync --dev

      - name: Run ruff format check
        run: uv run ruff format --check src/

      - name: Run ruff linter
        run: uv run ruff check src/

      - name: Run mypy
        run: uv run mypy src/intensity_normalization/