name: samtools_flagstat on: push: paths: - software/samtools/flagstat/** - .github/workflows/samtools_flagstat.yml - tests/software/samtools/** pull_request: paths: - software/samtools/flagstat/** - .github/workflows/samtools_flagstat.yml - tests/software/samtools/** jobs: ci_test: runs-on: ubuntu-latest strategy: matrix: nxf_version: [20.07.1, ""] env: NXF_ANSI_LOG: false steps: - uses: actions/checkout@v2 - name: Install Nextflow env: NXF_VER: ${{ matrix.nxf_version }} run: | wget -qO- get.nextflow.io | bash sudo mv nextflow /usr/local/bin/ - name: Set up Python uses: actions/setup-python@v2 with: python-version: "3.x" - name: Install dependencies run: python -m pip install --upgrade pip pytest-workflow # Test the module - run: pytest --tag samtools_flagstat --symlink --wt 2