add log capture #13
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| name: nf-bactopia CI | |
| on: | |
| push: | |
| branches: | |
| - '*' | |
| tags-ignore: | |
| - '*' | |
| pull_request: | |
| branches: | |
| - '*' | |
| jobs: | |
| build: | |
| name: Build nf-bactopia | |
| if: "!contains(github.event.head_commit.message, '[ci skip]')" | |
| runs-on: ubuntu-latest | |
| timeout-minutes: 10 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| java_version: [17] | |
| nextflow_version: ['25.04'] | |
| steps: | |
| - name: Environment | |
| run: env | sort | |
| - name: Checkout | |
| uses: actions/checkout@v1 | |
| with: | |
| fetch-depth: 1 | |
| submodules: true | |
| - name: Setup Java ${{ matrix.java_version }} | |
| uses: actions/setup-java@v1 | |
| with: | |
| java-version: ${{matrix.java_version}} | |
| architecture: x64 | |
| distribution: 'temurin' | |
| - name: Unit tests | |
| run: make test | |
| env: | |
| GRADLE_OPTS: '-Dorg.gradle.daemon=false' | |
| - name: Setup Nextflow ${{ matrix.nextflow_version }} | |
| uses: nf-core/setup-nextflow@b9f764e8ba5c76b712ace14ecbfcef0e40ae2dd8 # v1 | |
| with: | |
| version: "${{ matrix.nextflow_version }}" | |
| - name: Install | |
| run: make install | |
| - name: Test | |
| run: nextflow run nf-bactopia-test/ -plugins nf-bactopia@1.0.0 --help |