fix(pharmcat): fix multiple outside calls batch processing #174
Workflow file for this run
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| name: PharmCAT CI | |
| on: | |
| workflow_dispatch: | |
| branches: | |
| - '*' | |
| push: | |
| branches: | |
| - '*' | |
| paths: | |
| - '.github/workflows/ci-pharmcat.yml' | |
| - 'src/main/**' | |
| - 'src/test/**' | |
| - 'build.gradle' | |
| # cancel current build on push from the same PR, branch or tag (https://stackoverflow.com/a/72408109/1063501) | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| build: | |
| name: Build project | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v3 | |
| - name: Set up JDK | |
| uses: actions/setup-java@v3 | |
| with: | |
| distribution: 'temurin' | |
| java-version: | | |
| 17 | |
| 21 | |
| cache: 'gradle' | |
| - name: Run PharmCAT tests | |
| run: ./gradlew test --no-daemon --info --scan | |
| - uses: actions/upload-artifact@v4 | |
| if: failure() | |
| with: | |
| name: ci-pharmcat-tests-jdk17 | |
| path: build/reports/tests/test/index.html | |
| if-no-files-found: ignore | |
| - uses: actions/upload-artifact@v4 | |
| if: failure() | |
| with: | |
| name: ci-pharmcat-tests-jdk17 | |
| path: build/reports/tests/test/index.html | |
| if-no-files-found: ignore | |
| - name: Run PharmCAT tests on Java 21 | |
| run: ./gradlew testOnJava21 --no-daemon --info --scan | |
| - uses: actions/upload-artifact@v4 | |
| if: failure() | |
| with: | |
| name: ci-pharmcat-tests-jdk21 | |
| path: build/reports/tests/test/index.html | |
| if-no-files-found: ignore | |
| - uses: actions/upload-artifact@v4 | |
| if: failure() | |
| with: | |
| name: ci-pharmcat-tests-jdk21 | |
| path: build/reports/tests/test/index.html | |
| if-no-files-found: ignore | |
| - name: Codecov | |
| uses: codecov/codecov-action@v3 | |
| with: | |
| files: ./build/reports/jacoco/test/jacocoTestReport.xml | |
| flags: unittests | |
| - name: Send Slack notification on failure | |
| if: failure() | |
| env: | |
| SLACK_BOT_TOKEN: ${{ secrets.SLACK_NOTIFICATIONS_BOT_TOKEN }} | |
| uses: voxmedia/github-action-slack-notify-build@v1 | |
| with: | |
| channel: dev | |
| status: FAILED | |
| color: danger |