graphnet-team/graphnet

# This is a simple workflow to run unit tests and code coverage
name: Build
 
# Controls when the workflow will run
on:
  # Triggers the workflow on push and PRs
  push:
  pull_request:
    branches: [ main ]
 
  # Allows you to run this workflow manually from the Actions tab
  workflow_dispatch:
 
# A workflow run is made up of one or more jobs that can run sequentially or in parallel
jobs:
 
  check-codeclimate-credentials:
    name: Check CodeClimate credentials
    runs-on: ubuntu-22.04
    outputs:
      has_credentials: ${{ steps.setvar.outputs.has_credentials }}
    steps:
      - name: Check secrets
        id: setvar
        run: |
         if [[ "${{ secrets.CODECLIMATE_TEST_REPORTER_ID }}" != "" ]]; \
         then
           echo "Credentials to access CodeClimate found"
           echo has_credentials="true" >> $GITHUB_OUTPUT
         else
           echo "Credentials to access CodeClimate not found"
           echo has_credentials="false" >> $GITHUB_OUTPUT
         fi
 
  build-icetray:
    name: Unit tests - IceTray
    needs: [ check-codeclimate-credentials ]
    runs-on: ubuntu-22.04
    container:
      image: icecube/icetray:icetray-prod-v1.8.1-ubuntu20.04-X64
      options: --user root
    steps:
      - name: install git
        run: |
          apt-get --yes install sudo
          sudo apt update --fix-missing --yes
          sudo apt upgrade --yes
          sudo apt-get install --yes git-all
      - name: Set environment variables
        run: |
          echo "PATH=/usr/local/icetray/bin:$PATH" >> $GITHUB_ENV
          echo "PYTHONPATH=/usr/local/icetray/lib:$PYTHONPATH" >> $GITHUB_ENV
          echo "LD_LIBRARY_PATH=/usr/local/icetray/lib:/usr/local/icetray/cernroot/lib:/usr/local/icetray/lib/tools:$LD_LIBRARY_PATH" >> $GITHUB_ENV
      - uses: actions/checkout@v3
      - name: Print available disk space before graphnet install
        run: df -h
      - name: Upgrade packages already installed on icecube/icetray
        run: |
          pip install --upgrade astropy  # Installed version incompatible with numpy 1.23.0 [https://github.com/astropy/astropy/issues/12534]
          pip install --ignore-installed PyYAML  # Distutils installed [https://github.com/pypa/pip/issues/5247]
          pip install --upgrade psutil # Original version from IceTray Environment incompatible
      - name: Install package
        uses: ./.github/actions/install
        with:
          editable: true
      - name: Print packages in pip
        run: |
          pip show torch
          pip show torch-geometric
          pip show torch-cluster
          pip show torch-sparse
          pip show torch-scatter
          pip show jammy_flows
      - name: Run unit tests and generate coverage report
        run: |
          coverage run --source=graphnet -m pytest tests/ --ignore=tests/examples/04_training --ignore=tests/utilities 
          coverage run -a --source=graphnet -m pytest tests/examples/04_training
          coverage run -a --source=graphnet -m pytest tests/utilities 
          coverage xml -o coverage.xml
    
      - name: Work around permission issue
        run: |
          git config --global --add safe.directory /__w/graphnet/graphnet
      - name: Publish code coverage
        uses: paambaati/codeclimate-action@v3.0.0
        if: needs.check-codeclimate-credentials.outputs.has_credentials == 'true'
        env:
          CC_TEST_REPORTER_ID: ${{ secrets.CODECLIMATE_TEST_REPORTER_ID }}
        with:
          coverageCommand: coverage report
          coverageLocations: coverage.xml:coverage.py
 
  build-matrix:
    name: Unit tests - Python versions
    runs-on: ubuntu-22.04
    strategy:
      matrix:
        python-version: [3.8, 3.9, '3.10', '3.11']
    steps:
      - uses: actions/checkout@v3
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v4
        with:
          python-version: ${{ matrix.python-version }}
      - name: Print available disk space before graphnet install
        run: df -h
      - name: Install package
        uses: ./.github/actions/install
        with:
          editable: true
      - name: Print available disk space after graphnet install
        run: df -h
      - name: Print packages in pip
        run: |
          pip show torch
          pip show torch-geometric
          pip show torch-cluster
          pip show torch-sparse
          pip show torch-scatter
          pip show numpy
 
 
      - name: Run unit tests and generate coverage report
        run: |
          set -o pipefail  # To propagate exit code from pytest
          coverage run --source=graphnet -m pytest tests/ --ignore=tests/utilities --ignore=tests/data/ --ignore=tests/deployment/ --ignore=tests/examples/01_icetray/
          coverage run -a --source=graphnet -m pytest tests/utilities
          coverage report -m
      - name: Print available disk space after unit tests
        run: df -h
 
  build-macos:
    name: Unit tests - macOS
    runs-on: macos-13
    steps:
      - uses: actions/checkout@v3
      - name: Set up Python 3.8
        uses: actions/setup-python@v4
        with:
          python-version: 3.8
      - name: Install package
        uses: ./.github/actions/install
        with:
          editable: true
          hardware: "cpu"
      - name: Print packages in pip
        run: |
            pip show torch
            pip show torch-geometric
            pip show torch-cluster
            pip show torch-sparse
            pip show torch-scatter
      - name: Run unit tests and generate coverage report
        run: |
          set -o pipefail  # To propagate exit code from pytest
          coverage run --source=graphnet -m pytest tests/  --ignore=tests/data/ --ignore=tests/deployment/ --ignore=tests/examples/ --ignore=tests/utilities
          coverage run -a --source=graphnet -m pytest tests/utilities
          coverage report -m
 
  docs:
    name: Documentation Compilation
    runs-on: ubuntu-22.04
    steps:
      - uses: actions/checkout@v3
      - name: Install package
        uses: ./.github/actions/install
      - name: Build documentation
        run: |
          cd docs
          make clean
          sphinx-apidoc \
            --module-first \
            --separate \
            --force \
            -d 2 \
            --templatedir=source/_templates/ \
            -o source/api ../src/
          sed -i "2s/.*/API/" source/api/graphnet.rst
          make html