test_python_ver_matrix.yml

name: Python Tests
on:
  push:
    branches:
      - develop
      - master

  pull_request:
    branches:
      - master
  workflow_dispatch:
  schedule:
    - cron:  '48 4 * * *'

jobs:
  build:
    name: Python Version Matrix

    runs-on: ubuntu-22.04
    continue-on-error: ${{ matrix.experimental }}
    env:
      AMICI_SKIP_CMAKE_TESTS: "TRUE"
      AMICI_PARALLEL_COMPILE: ""

    strategy:
      fail-fast: false
      matrix:
        python-version: ['3.10', '3.11', '3.12']
        experimental: [false]

    steps:
    - run: echo "AMICI_DIR=$(pwd)" >> $GITHUB_ENV
    - run: echo "BNGPATH=${AMICI_DIR}/ThirdParty/BioNetGen-2.7.0" >> $GITHUB_ENV

    - name: Set up Python ${{ matrix.python-version }}
      uses: actions/setup-python@v5
      with:
        python-version: ${{ matrix.python-version }}

    - uses: actions/checkout@v4
      with:
        fetch-depth: 20

    - name: Install apt dependencies
      uses: ./.github/actions/install-apt-dependencies

    - name: Build BNGL
      run: scripts/buildBNGL.sh

    - name: Install python package
      run: scripts/installAmiciSource.sh

    # install pysb before sympy to allow for sympy>=1.12 (https://github.com/pysb/pysb/commit/e83937cb8c74afc9b2fa96595b68464946745f33)
    - run: source venv/bin/activate && pip3 install git+https://github.com/pysb/pysb

    # until sympy>1.12 is released
    - run: source venv/bin/activate && pip3 install git+https://github.com/sympy/sympy.git@master
      if: matrix.python-version == '3.12'

    - run: source venv/bin/activate && pip3 install "sympy>=1.12.1"
      if: matrix.python-version != '3.12'

    - name: Get Pooch Cache Directory
      id: get-pooch-cache
      run: |
        echo "pooch-cache=$(source venv/bin/activate && python -c 'import pooch; print(pooch.os_cache("pooch"))')" >> $GITHUB_ENV

    - name: Cache Pooch Directory
      uses: actions/cache@v4
      with:
        path: ${{ env.pooch-cache }}
        key: ${{ runner.os }}-py${{ matrix.python-version }}-${{ github.job }}

    - name: Python tests
      run: |
        source venv/bin/activate \
          && python3 -m pytest \
            --durations=10 \
            --ignore-glob=*petab* \
            --ignore-glob=*test_splines.py ${AMICI_DIR}/python/tests