unit_tests.yaml

name: unit tests

# Run the test suite on pushes (incl. merges) to main
# Run the test suite when a PR is opened, pushed to, or reopened
on:
  push:
    branches:
      - main
  pull_request:
    types: [opened, synchronize, reopened]

jobs:
  unit_tests:
    runs-on: ubuntu-latest
    strategy:
      matrix:
        python-version: ['3.10']
    services:
      # Label used to access the service container
      postgres:
        # Docker Hub image
        image: postgres
        # Provide the password for postgres
        env:
          POSTGRES_PASSWORD: "super-secure-password"
        # 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:
      - name: Checkout
        uses: actions/checkout@v3
        with:
          fetch-depth: 0
      - name: Set up chart-testing
        uses: helm/chart-testing-action@v2.6.0
      - name: Add bitnami
        run: helm repo add bitnami https://charts.bitnami.com/bitnami
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v4
        with:
          python-version: ${{ matrix.python-version }}
      - name: Chart Lint
        run: ct lint --all
      - name: Create kind cluster
        uses: helm/kind-action@v1.8.0
      - name: Run Chart Templating Unit Tests
        run: python3 -m unittest unit_test/**/*.py
      - name: Test Seqr Chart Installation
        run: |
          # This hack us skip some expensive setup within the seqr startup
          export PGPASSWORD='super-secure-password'; psql -h localhost -U postgres -c 'CREATE DATABASE seqrdb';

          # Add secrets
          kubectl create secret generic postgres-secrets --from-literal=password='super-secure-password'
          kubectl create secret generic seqr-secrets --from-literal=django_key='securely-generated-key'

          # The extra variable is to allow kubernetes to ping our postrgres running locally
          ct install --charts charts/seqr --namespace default --helm-extra-set-args "--set=environment.POSTGRES_SERVICE_HOSTNAME=172.17.0.1"