PharmaPy/.github/workflows/ci.yml at master · PharmaPy-org/PharmaPy · GitHub

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name: CI

on:
  push:
    branches:
      - master
  pull_request:
    branches:
      - "**"
  workflow_dispatch:

permissions:
  contents: read

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

jobs:
  core-tests:
    name: Core tests
    runs-on: ubuntu-latest
    timeout-minutes: 10

    steps:
      - name: Check out repository
        uses: actions/checkout@v5

      - name: Set up Python
        uses: actions/setup-python@v6
        with:
          python-version: "3.11"

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

      - name: Collect tests
        run: python -m pytest --collect-only

      - name: Run assimulo-free tests
        run: python -m pytest tests/ -m "not assimulo"

  pixi-lock:
    name: Locked pixi install (${{ matrix.os }})
    runs-on: ${{ matrix.os }}
    timeout-minutes: 15
    strategy:
      fail-fast: false
      matrix:
        os:
          - ubuntu-latest
          - windows-latest

    steps:
      - name: Check out repository
        uses: actions/checkout@v5

      - name: Reject non-local PyPI lock entries
        shell: bash
        run: |
          if grep -nE -- '- pypi:' pixi.lock | grep -vE -- '- pypi: \./$'; then
            echo "::error file=pixi.lock::Only the local editable project may be installed from PyPI in pixi environments." >&2
            exit 1
          fi

      - name: Set up locked pixi environments
        uses: prefix-dev/setup-pixi@v0.10.0
        with:
          pixi-version: v0.74.0
          manifest-path: pyproject.toml
          environments: >-
            default
            assimulo
          locked: true
          cache: true
          cache-write: ${{ github.event_name == 'push' && github.ref_name == 'master' }}

      - name: Verify documented locked installation
        run: pixi install --all --locked

      - name: Verify core and solver imports
        run: |
          pixi run python -c "import PharmaPy"
          pixi run -e assimulo python -c "import PharmaPy, assimulo"

  integration-assimulo:
    name: Assimulo integration tests
    runs-on: ubuntu-latest
    timeout-minutes: 30
    continue-on-error: true

    steps:
      - name: Check out repository
        uses: actions/checkout@v5

      - name: Set up locked Assimulo environment
        uses: prefix-dev/setup-pixi@v0.10.0
        with:
          pixi-version: v0.74.0
          manifest-path: pyproject.toml
          environments: assimulo
          locked: true
          cache: true
          cache-write: false

      - name: Run Assimulo-marked tests
        run: pixi run -e assimulo test-assimulo