unit-tests.yml

name: Unit Tests

# Run the test suite on pushes (incl. merges) to master and dev
# Run the test suite when a PR is opened, pushed to, or reopened
on:
  push:
    branches:
      - master
      - dev
    paths-ignore:
      - 'hail_search/**'
      - 'vlm/**'
      - '.github/workflows/hail-search-unit-tests.yaml'
  pull_request:
    types: [opened, synchronize, reopened]
    paths-ignore:
      - 'hail_search/**'
      - 'vlm/**'
      - '.github/workflows/hail-search-unit-tests.yaml'

jobs:
  python:
    runs-on: ubuntu-latest
    strategy:
      matrix:
        python-version: [3.9]

    services:
      # Label used to access the service container
      postgres:
        # Docker Hub image
        image: postgres
        # Provide the password for postgres
        env:
          POSTGRES_PASSWORD: "pgtest"
        # Set health checks to wait until postgres has started
        options: >-
          --health-cmd pg_isready
          --health-interval 10s
          --health-timeout 5s
          --health-retries 5
        ports:
          # Maps tcp port 5432 on service container to the host
          - 5432:5432

    steps:
      - uses: actions/checkout@v2
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v2
        with:
          python-version: ${{ matrix.python-version }}
      - uses: actions/setup-java@v1
        with:
          java-version: "8" # The JDK version needed by hail
          java-package: jdk # (jre, jdk, or jdk+fx) - defaults to jdk
          architecture: x64 # (x64 or x86) - defaults to x64
      - name: Use pip cache
        uses: actions/cache@v2
        with:
          path: ~/.cache/pip
          key: pip-${{ hashFiles('**/requirements*.txt') }}
          restore-keys: |
            pip-
      - name: Install dependencies
        run: |
          python -m pip install --upgrade pip wheel
          pip install -r requirements.txt
          pip install -r requirements-dev.txt
      - name: Run coverage tests
        run: |
          coverage run --source="./matchmaker","./seqr","./reference_data","./panelapp" --omit="*/migrations/*","*/apps.py" manage.py test -p '*_tests.py' -v 2 reference_data seqr matchmaker panelapp
          coverage report --fail-under=99

  nodejs:
    runs-on: ubuntu-latest

    strategy:
      matrix:
        node-version: [14]

    steps:
      - uses: actions/checkout@v2
      - name: Use Node.js ${{ matrix.node-version }}
        uses: actions/setup-node@v3
        with:
          node-version: ${{ matrix.node-version }}
          cache: "npm"
          cache-dependency-path: ui/package-lock.json
      - run: npm install -g npm@7.24.2
      - run: npm ci
        working-directory: ./ui
      - run: npm test
        working-directory: ./ui