test.yml

# This workflow will install Python dependencies, run tests and lint with a variety of Python versions
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions

name: scvi-tools

on:
    push:
        branches: [main, 0.15.x, 0.16.x, 0.17.x, 0.18.x, 0.19.x, 0.20.x, 1.0.x]
    pull_request:
        branches: [main, 0.15.x, 0.16.x, 0.17.x, 0.18.x, 0.19.x, 0.20.x, 1.0.x]

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

jobs:
    test:
        runs-on: ${{ matrix.os }}
        timeout-minutes: 20
        defaults:
            run:
                shell: bash -e {0} # -e to fail on error

        strategy:
            fail-fast: false
            matrix:
                include:
                    - os: ubuntu-latest
                      python: "3.9"
                    - os: ubuntu-latest
                      python: "3.10"
                    - os: ubuntu-latest
                      python: "3.10"
                      pip-flags: "--pre"
                    - os: ubuntu-latest
                      python: "3.11"

        env:
            OS: ${{ matrix.os }}
            PYTHON: ${{ matrix.python }}

        steps:
            - uses: actions/checkout@v3
            - name: Set up Python ${{ matrix.python }}
              uses: actions/setup-python@v4
              with:
                  python-version: ${{ matrix.python }}
                  cache: "pip"
                  cache-dependency-path: "**/pyproject.toml"
            - name: Install test dependencies
              run: |
                  python -m pip install --upgrade pip wheel
            - name: Install dependencies
              run: |
                  pip install ${{ matrix.pip-flags }} ".[dev,pymde,autotune,hub]"
            - name: Test
              env:
                  MPLBACKEND: agg
                  PLATFORM: ${{ matrix.os }}
                  DISPLAY: :42
              run: |
                  pytest -v --cov --color=yes
            - name: Upload coverage
              uses: codecov/codecov-action@v3