CodeEntropy/.github/workflows/pr.yaml at main · CCPBioSim/CodeEntropy · GitHub

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name: Pull Request CI

on:
  pull_request:

concurrency:
  group: pr-${{ github.ref }}
  cancel-in-progress: true

jobs:
  unit:
    name: Unit
    runs-on: ${{ matrix.os }}
    timeout-minutes: 25
    strategy:
      fail-fast: false
      matrix:
        os: [ubuntu-24.04, macos-15, windows-2025]
        python-version: ["3.12", "3.13", "3.14"]
    steps:
      - name: Checkout
        uses: actions/checkout@8e8c483db84b4bee98b60c0593521ed34d9990e8 # v6

      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@a309ff8b426b58ec0e2a45f0f869d46889d02405 # v6.2.0
        with:
          python-version: ${{ matrix.python-version }}
          cache: pip

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

      - name: Pytest (unit) • ${{ matrix.os }}, ${{ matrix.python-version }}
        run: python -m pytest tests/unit -q

  regression-quick:
    name: Regression (quick)
    needs: unit
    runs-on: ubuntu-24.04
    timeout-minutes: 35
    steps:
      - name: Checkout
        uses: actions/checkout@8e8c483db84b4bee98b60c0593521ed34d9990e8 # v6

      - name: Set up Python 3.14
        uses: actions/setup-python@a309ff8b426b58ec0e2a45f0f869d46889d02405 # v6.2.0
        with:
          python-version: "3.14"
          cache: pip

      - name: Cache testdata
        uses: actions/cache@v4
        with:
          path: .testdata
          key: codeentropy-testdata-v1-${{ runner.os }}-py3.14

      - name: Install (testing)
        run: |
          python -m pip install --upgrade pip
          python -m pip install -e .[testing]

      - name: Pytest (regression quick)
        run: python -m pytest tests/regression -q

      - name: Upload artifacts (failure)
        if: failure()
        uses: actions/upload-artifact@v4
        with:
          name: quick-regression-failure
          path: |
            .testdata/**
            tests/regression/**/.pytest_cache/**
            /tmp/pytest-of-*/pytest-*/**/config.yaml
            /tmp/pytest-of-*/pytest-*/**/codeentropy_stdout.txt
            /tmp/pytest-of-*/pytest-*/**/codeentropy_stderr.txt
            /tmp/pytest-of-*/pytest-*/**/codeentropy_output.json

  docs:
    name: Docs
    needs: unit
    runs-on: ubuntu-24.04
    timeout-minutes: 25

    steps:
      - name: Checkout
        uses: actions/checkout@8e8c483db84b4bee98b60c0593521ed34d9990e8

      - name: Set up Python 3.14
        uses: actions/setup-python@a309ff8b426b58ec0e2a45f0f869d46889d02405
        with:
          python-version: "3.14"
          cache: pip

      - name: Install
        run: |
          python -m pip install --upgrade pip
          python -m pip install -e .[docs]

      - name: Build docs
        run: |
          make -C docs clean
          make -C docs html SPHINXOPTS="-W --keep-going"

      - name: Upload docs artifact
        if: always()
        uses: actions/upload-artifact@v4
        with:
          name: docs-html
          path: docs/_build/html

  pre-commit:
    name: Pre-commit
    runs-on: ubuntu-24.04
    timeout-minutes: 15
    steps:
      - name: Checkout
        uses: actions/checkout@8e8c483db84b4bee98b60c0593521ed34d9990e8 # v6

      - name: Set up Python 3.14
        uses: actions/setup-python@a309ff8b426b58ec0e2a45f0f869d46889d02405 # v6.2.0
        with:
          python-version: "3.14"
          cache: pip

      - name: Install (pre-commit)
        run: |
          python -m pip install --upgrade pip
          python -m pip install -e .[pre-commit]

      - name: Run pre-commit
        shell: bash
        run: |
          pre-commit install
          pre-commit run --all-files || {
            git status --short
            git diff
            exit 1
          }

  coverage:
    name: Coverage
    needs: unit
    runs-on: ubuntu-24.04
    timeout-minutes: 30
    steps:
      - name: Checkout repo
        uses: actions/checkout@8e8c483db84b4bee98b60c0593521ed34d9990e8

      - name: Set up Python 3.14
        uses: actions/setup-python@a309ff8b426b58ec0e2a45f0f869d46889d02405
        with:
          python-version: "3.14"
          cache: pip

      - name: Install (testing)
        run: |
          python -m pip install --upgrade pip
          python -m pip install -e .[testing]

      - name: Run unit test suite with coverage
        run: |
          pytest tests/unit \
            --cov CodeEntropy \
            --cov-report term-missing \
            --cov-report xml \
            -q

      - name: Upload to Coveralls
        uses: coverallsapp/github-action@5cbfd81b66ca5d10c19b062c04de0199c215fb6e
        with:
          github-token: ${{ secrets.GITHUB_TOKEN }}
          file: coverage.xml
          fail-on-error: false