This repository has been archived by the owner on Jan 24, 2024. It is now read-only.
Fixing problem with left-trimming variants (#99) #356
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| name: continuous-integration | |
| on: | |
| - push | |
| - pull_request | |
| jobs: | |
| formatting: | |
| permissions: | |
| contents: read # for actions/checkout to fetch code | |
| pull-requests: write # for marocchino/sticky-pull-request-comment to create or update PR comment | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| java: ['16'] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up JDK | |
| uses: actions/setup-java@v2 | |
| with: | |
| java-version: ${{ matrix.java }} | |
| distribution: 'adopt' | |
| - name: Check formatting | |
| run: mvn com.coveo:fmt-maven-plugin:check -Dverbose=true | |
| - name: Comment PR | |
| if: github.event_name == 'pull_request' && failure() | |
| uses: marocchino/sticky-pull-request-comment@v2.2.0 | |
| with: | |
| message: 'Please format your code with `mvn com.coveo:fmt-maven-plugin:format`.' | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| testing: | |
| runs-on: ubuntu-latest | |
| needs: formatting | |
| strategy: | |
| matrix: | |
| java: ['8', '16'] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| lfs: true | |
| - name: Check out LFS objects | |
| run: git lfs fetch --all | |
| - name: Set up JDK | |
| uses: actions/setup-java@v2 | |
| with: | |
| java-version: ${{ matrix.java }} | |
| distribution: 'adopt' | |
| - name: Build JAR with Maven without submitting coverage report | |
| run: > | |
| mvn | |
| --batch-mode | |
| --update-snapshots | |
| clean | |
| package | |
| - name: Run end-to-end tests | |
| run: | | |
| cd tests/hg19-chr22 | |
| bash run-tests.sh | |
| testing-coverage: | |
| runs-on: ubuntu-latest | |
| needs: formatting | |
| strategy: | |
| matrix: | |
| java: ['16'] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| lfs: true | |
| - name: Check out LFS objects | |
| run: git lfs fetch --all | |
| - name: Set up JDK | |
| uses: actions/setup-java@v2 | |
| with: | |
| java-version: ${{ matrix.java }} | |
| distribution: 'adopt' | |
| - name: Run test with Maven and submit coverage report | |
| run: > | |
| mvn | |
| --define repoToken=${{ secrets.COVERALLS_REPO_TOKEN }} | |
| --batch-mode | |
| --update-snapshots | |
| clean | |
| test | |
| jacoco:report | |
| coveralls:report |