Update: Installation Documenation #6548
Workflow file for this run
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| ##################################################################### | |
| # Integration test suite definition for IRIDA using GitHub Actions | |
| ##################################################################### | |
| name: Integration Tests | |
| on: | |
| pull_request: # Run on all pull requests | |
| push: | |
| branches: # Run on any push to development or main | |
| - development | |
| - main | |
| schedule: # Run daily on development and weekly on main | |
| - cron: 0 1 * * * | |
| branches: development | |
| - cron: 0 2 * * 0 | |
| branches: main | |
| jobs: | |
| gradle-build: # Gradle integration tests | |
| timeout-minutes: 60 | |
| runs-on: ubuntu-20.04 #See pre-installed software at https://github.com/actions/virtual-environments/blob/main/images/linux/Ubuntu2004-Readme.md | |
| env: | |
| MYSQL_PORT: 3800 | |
| MYSQL_USER: test | |
| MYSQL_PASSWORD: test | |
| MYSQL_DATABASE: irida_integration_test | |
| MYSQL_HOST: 127.0.0.1 | |
| strategy: | |
| fail-fast: false #Setting so that if one of the test suites fail, the other will continue | |
| matrix: | |
| #The list of test suites to run | |
| suite: | |
| [ | |
| "service_testing", | |
| "rest_testing", | |
| "ui_testing", | |
| "galaxy_testing", | |
| "galaxy_pipeline_testing", | |
| "open_api_testing", | |
| "file_system_testing", | |
| ] | |
| steps: | |
| - uses: actions/checkout@v3 #Checkout the project from git | |
| - name: Get pnpm store directory | |
| id: pnpm-cache | |
| run: | | |
| echo "::set-output name=pnpm_cache_dir::$(./gradlew pnpmCacheDir -q)" | |
| - name: Setup pnpm cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: ${{ steps.pnpm-cache.outputs.pnpm_cache_dir }} | |
| key: ${{ runner.os }}-pnpm-store-${{ hashFiles('**/pnpm-lock.yaml') }} | |
| restore-keys: | | |
| ${{ runner.os }}-pnpm-store- | |
| - name: Setup MySQL | |
| uses: mirromutth/[email protected] | |
| with: | |
| host port: ${{ env.MYSQL_PORT }} | |
| character set server: "utf8" | |
| collation server: "utf8_general_ci" | |
| mysql version: "5.7" | |
| mysql database: ${{ env.MYSQL_DATABASE }} | |
| mysql user: ${{ env.MYSQL_USER }} | |
| mysql password: ${{ env.MYSQL_PASSWORD }} | |
| - name: Set up JDK 17 # Installs java 17 | |
| uses: actions/setup-java@v1 | |
| with: | |
| java-version: 17 | |
| - name: Validate Gradle wrapper | |
| uses: gradle/wrapper-validation-action@v1 | |
| - name: Setup Gradle | |
| uses: gradle/gradle-build-action@v2 | |
| - name: Wait for MySQL | |
| run: | | |
| while ! mysqladmin ping --host=${{ env.MYSQL_HOST }} --port=${{ env.MYSQL_PORT }} --user=${{ env.MYSQL_USER }} --password=${{ env.MYSQL_ROOT_PASSWORD }} --silent; do | |
| sleep 1 | |
| done | |
| - name: Run tests with Gradle # Run the test suite | |
| run: ./run-tests.sh --db-host ${{ env.MYSQL_HOST }} --db-port ${{ env.MYSQL_PORT }} --database ${{ env.MYSQL_DATABASE}} ${{ matrix.suite }} | |
| - name: Publish Test Report | |
| uses: mikepenz/action-junit-report@v3 | |
| if: matrix.suite != 'open_api_testing' && always() | |
| with: | |
| report_paths: "**/build/test-results/*ITest/TEST-*.xml" # Publish Integration Test results | |
| fail_on_failure: false | |
| check_name: "JUnit Test Report (${{ matrix.suite }})" | |
| annotate_only: true | |
| docs-build: # Testing the javadoc and jekyll documentation builds | |
| runs-on: ubuntu-20.04 | |
| env: | |
| MYSQL_PORT: 3800 | |
| MYSQL_USER: test | |
| MYSQL_PASSWORD: test | |
| MYSQL_DATABASE: irida_integration_test | |
| MYSQL_HOST: 127.0.0.1 | |
| steps: | |
| - uses: actions/checkout@v4 #Checkout the project from git | |
| - name: Get pnpm store directory | |
| id: pnpm-cache | |
| run: | | |
| echo "::set-output name=pnpm_cache_dir::$(./gradlew pnpmCacheDir -q)" | |
| - name: Setup pnpm cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: ${{ steps.pnpm-cache.outputs.pnpm_cache_dir }} | |
| key: ${{ runner.os }}-pnpm-store-${{ hashFiles('**/pnpm-lock.yaml') }} | |
| restore-keys: | | |
| ${{ runner.os }}-pnpm-store- | |
| - name: Setup MySQL | |
| uses: mirromutth/[email protected] | |
| with: | |
| host port: ${{ env.MYSQL_PORT }} | |
| character set server: "utf8" | |
| collation server: "utf8_general_ci" | |
| mysql version: "5.7" | |
| mysql database: ${{ env.MYSQL_DATABASE }} | |
| mysql user: ${{ env.MYSQL_USER }} | |
| mysql password: ${{ env.MYSQL_PASSWORD }} | |
| - name: Setup Ruby | |
| uses: actions/setup-ruby@v1 | |
| - name: Set up JDK 17 # Installs java 17 | |
| uses: actions/setup-java@v1 | |
| with: | |
| java-version: 17 | |
| - name: Validate Gradle wrapper | |
| uses: gradle/wrapper-validation-action@v1 | |
| - name: Setup Gradle | |
| uses: gradle/gradle-build-action@v2 | |
| - name: Wait for MySQL | |
| run: | | |
| while ! mysqladmin ping --host=${{ env.MYSQL_HOST }} --port=${{ env.MYSQL_PORT }} --user=${{ env.MYSQL_USER }} --password=${{ env.MYSQL_ROOT_PASSWORD }} --silent; do | |
| sleep 1 | |
| done | |
| - name: Build Documentation Site | |
| run: ./gradlew clean buildDocsSite -Dliquibase.update.database.schema=true -Dspring.datasource.url=jdbc:mysql://${{env.MYSQL_HOST}}:${{env.MYSQL_PORT}}/${{env.MYSQL_DATABASE}} -Dspring.datasource.dbcp2.max-wait=10000 |