Fix namespace bug #124
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| 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/[email protected] | |
| - 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/[email protected] | |
| - name: Run Chart Templating Unit Tests | |
| run: python3 -m unittest unit_test/**/*.py | |
| - name: Test Seqr Chart Installation | |
| run: | | |
| # This hack lets 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" |