test.yaml

name: Tests
on:
  push:
    branches:
      - "main"
  pull_request:
    branches:
      - "*"
  schedule:
    - cron: "0 13 * * 1"

jobs:
  build:
    name: Build (${{ matrix.python-version }} | ${{ matrix.os }})
    runs-on: ${{ matrix.os }}
    strategy:
      fail-fast: false
      matrix:
        os: ["macos-latest", "ubuntu-latest", "windows-latest"]
        python-version: ["3.9", "3.10", "3.11"]
    steps:
      - uses: actions/checkout@v4
      - name: Cache conda
        uses: actions/cache@v4
        env:
          # Increase this value to reset cache if ci/environment.yml has not changed
          CACHE_NUMBER: 0
        with:
          path: ~/conda_pkgs_dir
          key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ hashFiles('ci/environment-py${{ matrix.python-version }}.yml') }}
      # - uses: conda-incubator/setup-miniconda@v3
      #   with:
      #     # mamba-version: "*" # activate this to build with mamba.
      #     python-version: ${{ matrix.python-version }}
      #     miniforge-variant: Mambaforge
      #     channels: conda-forge, defaults # These need to be specified to use mamba
      #     channel-priority: true
      #     environment-file: ci/environment-py${{ matrix.python-version }}.yml

      #     activate-environment: test_env_particle-tracking-manager
      #     use-only-tar-bz2: true # IMPORTANT: This needs to be set for caching to work properly!
      # - name: Set up conda environment
      #   shell: bash -l {0}
      #   run: |
      #     python -m pip install -e . --no-deps --force-reinstall

      - name: Setup Micromamba Python ${{ matrix.python-version }}
        uses: mamba-org/setup-micromamba@v2
        with:
          init-shell: bash
          create-args: >-
            python=${{ matrix.python-version }} --channel conda-forge
          environment-file: ci/environment-py${{ matrix.python-version }}.yml
          cache-environment: true
          post-cleanup: 'all'

      - name: Install package
        shell: bash -l {0}
        run: |
          python -m pip install -e . --no-deps --force-reinstall


      - name: Run Tests
        shell: bash -l {0}
        run: |
          pytest --cov=./ --cov-report=xml
      - name: Upload code coverage to Codecov
        uses: codecov/codecov-action@v4
        with:
          file: ./coverage.xml
          flags: unittests
          env_vars: OS,PYTHON
          name: codecov-umbrella
          fail_ci_if_error: false