unit-tests.yml

name: Tests

on:
  push:
    branches:
      - main
    paths:
      - ".github/workflows/unit-tests.yml"
      - "tests/**"
      - "mess/**"
      - "setup.py"
      - "!.github/workflows/build-docs.yml"
      - "!docs/**"
      - "!mkdocs.yml"
      - "!README.md"
  pull_request:
    paths:
      - ".github/workflows/unit-tests.yml"
      - "tests/**"
      - "mess/**"
      - "setup.py"
      - "!.github/workflows/build-docs.yml"
      - "!docs/**"
      - "!mkdocs.yml"
      - "!README.md"

permissions:
  contents: read

jobs:
  tests:
    name: "Python ${{ matrix.python-version }} on ${{ matrix.os }}"
    runs-on: ${{ matrix.os }}

    defaults:
      run:
        shell: bash -el {0}

    strategy:
      matrix:
        os: [ubuntu-latest]
        python-version: ["3.12"]

    steps:
      - uses: actions/checkout@v4
        with:
          fetch-depth: 0

      - name: Setup apptainer
        uses: eWaterCycle/setup-apptainer@v2.0.0

      - name: Setup pip
        uses: actions/setup-python@v5
        with:
          python-version: ${{ matrix.python-version }}
          cache: "pip" # caching pip dependencies
          cache-dependency-path: setup.py

      - name: Install MeSS and pytest-cov
        run: |
          pip install -e . 
          pip install pytest coverage

      - name: Cache apptainer containers
        uses: actions/cache@v3
        with:
          path: .snakemake/apptainer # Cache the Apptainer containers directory
          key: ${{ runner.os }}-apptainer-${{ hashFiles('mess/workflow/envs/containers.yml') }}
          restore-keys: |
            ${{ runner.os }}-apptainer-
      - name: Run tests on ${{ matrix.os }} for python ${{ matrix.python-version }}
        run: |
          coverage run -m pytest