feat: support pairtools pairs flavor #84
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| ## Adapted from neurogenomics/rworkflows: rworkflows::use_workflow() | |
| ## Runs js2264/rworkflows/action.yml | |
| name: rworkflows | |
| 'on': | |
| push: | |
| branches: | |
| - master | |
| - devel | |
| - main | |
| - RELEASE_** | |
| pull_request: | |
| branches: | |
| - master | |
| - devel | |
| - main | |
| - RELEASE_** | |
| jobs: | |
| rworkflows: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| container: ${{ matrix.config.cont }} | |
| strategy: | |
| fail-fast: ${{ false }} | |
| matrix: | |
| config: | |
| - os: ubuntu-latest | |
| bioc: devel | |
| r: auto | |
| cont: bioconductor/bioconductor_docker:devel | |
| rspm: https://packagemanager.rstudio.com/cran/__linux__/focal/release | |
| - os: ubuntu-latest | |
| bioc: RELEASE_3_17 | |
| r: auto | |
| cont: bioconductor/bioconductor_docker:RELEASE_3_17 | |
| rspm: https://packagemanager.rstudio.com/cran/__linux__/focal/release | |
| # - os: macOS-latest | |
| # bioc: devel | |
| # r: auto | |
| # cont: ~ | |
| # rspm: ~ | |
| - os: windows-latest | |
| bioc: devel | |
| r: auto | |
| cont: ~ | |
| rspm: ~ | |
| steps: | |
| - uses: neurogenomics/rworkflows@master | |
| with: | |
| run_bioccheck: ${{ true }} | |
| run_rcmdcheck: ${{ true }} | |
| as_cran: ${{ true }} | |
| run_vignettes: ${{ true }} | |
| has_testthat: ${{ true }} | |
| run_covr: ${{ true }} | |
| run_pkgdown: ${{ true }} | |
| has_runit: ${{ false }} | |
| has_latex: ${{ false }} | |
| GITHUB_TOKEN: ${{ secrets.PAT_GITHUB }} | |
| run_docker: ${{ false }} | |
| docker_user: ${{ 'js2264' }} | |
| docker_org: ${{ 'js2264' }} | |
| DOCKER_TOKEN: ${{ secrets.DOCKER_TOKEN }} | |
| runner_os: ${{ runner.os }} | |
| cache_version: cache-v1 |