run_tests.yml

# This workflow will install Python dependencies, run tests and lint with a variety of Python versions
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions

name: Run tests

on:
  workflow_dispatch:
  pull_request_target:
    branches: [ main ]
    types: [opened, synchronize, reopened, labeled]

jobs:
  build:

    runs-on: ${{ matrix.os }}
    strategy:
      matrix:
        os: [ubuntu-latest, macos-latest, windows-latest]
        python-version: [3.9, 3.11]
        # Only one job at a time to avoid parallel access of test server
      max-parallel: 1
    if: (contains(github.event.pull_request.labels.*.name, 'safe to test')  || (github.event_name == 'workflow_dispatch'))

    steps:
    
      - uses: actions/checkout@v3
        with:
          ref: ${{ github.event.pull_request.head.sha }}

      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v4
        with:
          python-version: ${{ matrix.python-version }}

      - name: Display Python version
        run: python -c "import sys; print(sys.version)"
        
      - name: Update pip
        run:   |
               if [ "$RUNNER_OS" == "Windows" ]; then
                    python -m pip install --user --upgrade pip
               else
                    pip install --upgrade pip
               fi
        shell: bash

      - name: Install package
        run: |
          if [ "$RUNNER_OS" == "Windows" ]; then
               pip install --user .[test]
          else
               pip install .[test]
          fi
        shell: bash

      - name: Test with pytest
        env:
          REDCAP_API_TOKEN: ${{ secrets.REDCAP_API_TOKEN }}
          ELAB_API_TOKEN: ${{ secrets.ELAB_API_TOKEN }}
        shell: bash
        run: |
          # change directory to test installed and not local version
          ls -lh
          pwd
          cd ..
          pytest ${{ github.event.repository.name }}

  run-coverall:
    runs-on: [ubuntu-latest]
    needs: build
    steps:
      - uses: actions/checkout@v3
        with:
          ref: ${{ github.event.pull_request.head.sha }}

      - name: Setup Python 3.8
        uses: actions/setup-python@v4
        with:
          python-version: "3.9"

      - name: Display Python version
        run: python -c "import sys; print(sys.version)"
        
      - name: Update pip
        run:   |
               if [ "$RUNNER_OS" == "Windows" ]; then
                    python -m pip install --user --upgrade pip
               else
                    pip install --upgrade pip
               fi
        shell: bash

      - name: Install package
        run: |
          if [ "$RUNNER_OS" == "Windows" ]; then
               pip install --user .[test]
          else
               pip install .[test]
          fi
        shell: bash

      - name: Install Python test dependencies
        run: pip install --user coveralls

      - name: Create coverage
        env:
          REDCAP_API_TOKEN: ${{ secrets.REDCAP_API_TOKEN }}
          ELAB_API_TOKEN: ${{ secrets.ELAB_API_TOKEN }}
        shell: bash
        run: |
            # change directory to test installed and not local version
            cd ..
            coverage run -m pytest ${{ github.event.repository.name }}

      - name: Submit to coveralls
        env:
          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
        run: coveralls --service=github