PySUS/.github/workflows/python-package.yml at main · AlertaDengue/PySUS · GitHub

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name: main

on: [push, pull_request]

jobs:
  tests:
    runs-on: ${{ matrix.os }}
    timeout-minutes: ${{ (matrix.os == 'windows-latest' && 30) || 15 }}

    strategy:
      matrix:
        os: [ubuntu-latest, windows-latest]
        python-version: ["3.10", "3.11", "3.12"]

    concurrency:
      group: ci-tests-${{ matrix.os }}-${{ matrix.python-version }}-${{ github.ref }}
      cancel-in-progress: true

    steps:
    - uses: actions/checkout@v4

    - uses: conda-incubator/setup-miniconda@v3
      with:
        miniforge-version: latest
        environment-file: conda/dev.yaml
        channels: conda-forge,nodefaults
        activate-environment: pysus
        auto-update-conda: true
        conda-solver: libmamba

    - name: Install dependencies
      shell: bash -l {0}
      run: |
        pip install poetry poetry-plugin-export
        poetry config virtualenvs.create false
        if [ "${{ runner.os }}" = "Linux" ]; then
          poetry install --without dev --extras dbc
          pip install pre-commit
        else
          poetry install --without dev
        fi
        pip install pytest pytest-timeout pytest-retry pytest-asyncio pytest-cov

    - name: Linting
      if: matrix.os == 'ubuntu-latest'
      shell: bash -l {0}
      run: pre-commit run --files pysus/**/*

    - name: Tests (Linux)
      if: matrix.os != 'windows-latest'
      shell: bash -l {0}
      run: |
        poetry run pytest -vv pysus/tests/ --retries 3 --retry-delay 15 --cov=pysus --cov-report=xml:coverage.xml --cov-report=term-missing

    - name: Tests (Windows)
      if: matrix.os == 'windows-latest'
      shell: bash -l {0}
      run: |
        export DUCKDB_NO_THREADS=1
        poetry run pytest -vv pysus/tests/ --retries 3 --retry-delay 15 --timeout=480 -p no:cacheprovider -p no:asyncio

    - name: Upload coverage to Codecov
      if: matrix.os == 'ubuntu-latest'
      uses: codecov/codecov-action@v5
      with:
        files: ./coverage.xml
        fail_ci_if_error: false

  docker-tests:
    runs-on: ubuntu-latest
    timeout-minutes: 15
    defaults:
      run:
        shell: bash
    steps:
    - uses: actions/checkout@v4

    - name: Build Docker image
      run: docker compose -f docker/docker-compose.yaml build

    - name: Start container
      run: docker compose -f docker/docker-compose.yaml up -d

    - name: Wait for Jupyter
      run: |
        for i in $(seq 1 10); do
          curl -s -o /dev/null http://127.0.0.1:8888 && break
          sleep 2
        done

    - name: Run tests inside container
      run: docker compose -f docker/docker-compose.yaml exec -T -w /usr/src jupyter python3 -m pytest -vv pysus/tests/ --retries 3 --retry-delay 15 -x -o cache_dir=/tmp/.pytest_cache

    - name: Cleanup
      if: always()
      run: docker compose -f docker/docker-compose.yaml down -v