Run java integration tests with GH workflows #4
Workflow file for this run
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| name: Run integration tests for java loading commands | ||
| on: | ||
| push: | ||
| branches: [ "inc-data-upload-poc" ] | ||
| pull_request: | ||
| branches: [ "inc-data-upload-poc" ] | ||
| workflow_dispatch: | ||
| jobs: | ||
| build: | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - name: 'Checkout Code' | ||
| uses: actions/checkout@v4 | ||
| with: | ||
| path: ./cbioportal-core | ||
| - name: 'Get the cbioportal db version from pom.xml' | ||
| run: | | ||
| CBIO_DB_VERSION=$(python -c "import xml.etree.ElementTree as ET; tree = ET.parse('pom.xml'); root = tree.getroot(); ns = {'ns': 'http://maven.apache.org/POM/4.0.0'}; print(root.find('.//ns:cbioportal.version', ns).text)") | ||
| echo "$CBIO_DB_VERSION=$CBIO_DB_VERSION" | tee -a $GITHUB_ENV | ||
| - name: 'Download cgds.sql with cbioportal db schema of the given version' | ||
| run: | | ||
| curl -o cgds.sql https://raw.githubusercontent.com/cBioPortal/cbioportal/${{ env.CBIO_DB_VERSION }}/src/main/resources/db-scripts/cgds.sql | ||
| - name: 'Prepare cbiportal db container' | ||
| run: | | ||
| docker run -p 3306:3306 \ | ||
| -v $(pwd)/src/test/resources/seed_mini.sql:/docker-entrypoint-initdb.d/seed.sql:ro \ | ||
| -v $(pwd)/cgds.sql:/docker-entrypoint-initdb.d/cgds.sql:ro \ | ||
| -e MYSQL_ROOT_PASSWORD=root \ | ||
| -e MYSQL_USER=cbio_user \ | ||
| -e MYSQL_PASSWORD=somepassword \ | ||
| -e MYSQL_DATABASE=cgds_test \ | ||
| mysql:5.7 | ||
| - name: 'Prepare cbiportal db container' | ||
| mvn clean test -Dtest="**/integrationTest/**/*" | ||
| - name: Set up JDK 21 | ||
| uses: actions/setup-java@v3 | ||
| with: | ||
| java-version: '21' | ||
| distribution: 'temurin' | ||
| cache: maven | ||
| - name: Run integration tests | ||
| run: mvn test -Dtest="**/integrationTest/**/*" | ||
