minimal__install.yaml

name: minimal_install

on:
  push:
    paths-ignore:
      - "README.md"
      - "docs/**"
      - "CHANGELOG.md"
      - "CONTRIBUTORS.md"
      - "CONTRIBUTING.md"

  pull_request:
    paths-ignore:
      - "README.md"
      - "docs/*"
      - "CHANGELOG.md"
      - "CONTRIBUTORS.md"
      - "CONTRIBUTING.md"
      - "imgs/"

jobs:
  build_cpu:
    runs-on: ubuntu-latest
    # https://github.com/marketplace/actions/setup-miniconda#use-a-default-shell
    defaults:
      run:
        shell: bash -l {0}

    strategy:
      matrix:
        python-version: [3.8, 3.9, 3.11]
    steps:
      - name: Checkout repository
        uses: actions/checkout@v3
        # See: https://github.com/marketplace/actions/setup-miniconda
      - name: Setup miniconda
        uses: conda-incubator/setup-miniconda@v2
        with:
          auto-update-conda: true
          miniforge-variant: Mambaforge
          conda-channels: conda-forge
          python-version: ${{ matrix.python-version }}
          use-mamba: true
      - name: Install Graphein
        run: pip install -e .
      - name: Install Extras
        run: pip install -r .requirements/extras.in
      - name: Install Dev Dependencies
        run: pip install -r .requirements/dev.in
      - name: Run unit tests and generate coverage report
        run: pytest . --ignore-glob="tests/protein/tensor" --ignore="tests/ml/test_conversion.py" --ignore="tests/ml/test_torch_geometric_dataset.py"
      - name: Test notebook execution
        run: pytest --nbval-lax notebooks/ --current-env --ignore-glob="notebooks/dataloader_tutorial.ipynb" --ignore-glob="notebooks/higher_order_graphs.ipynb" --ignore-glob="notebooks/protein_graph_analytics.ipynb" --ignore-glob="notebooks/subgraphing_tutorial.ipynb" --ignore-glob="notebooks/splitting_a_dataset.ipynb" --ignore-glob="notebooks/protein_tensors.ipynb" --ignore-glob="notebooks/datasets_and_dataloaders.ipynb" --ignore-glob="notebooks/foldcomp.ipynb" --ignore-glob="notebooks/creating_datasets_from_the_pdb.ipynb"