Setup CD pipeline for rawrassembly #58
Workflow file for this run
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| # This workflow uses actions that are not certified by GitHub. | |
| # They are provided by a third-party and are governed by | |
| # separate terms of service, privacy policy, and support | |
| # documentation. | |
| # | |
| # See https://github.com/r-lib/actions/tree/master/examples#readme for | |
| # additional example workflows available for the R community. | |
| name: R-CMD-check-rawrr | |
| env: | |
| ACTIONS_ALLOW_UNSECURE_COMMANDS: 'true' | |
| on: | |
| push: | |
| branches: [ devel ] | |
| pull_request: | |
| branches: [ devel ] | |
| workflow_dispatch: | |
| jobs: | |
| build: | |
| runs-on: ubuntu-20.04 | |
| strategy: | |
| matrix: | |
| r-version: [4.3] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up R ${{ matrix.r-version }} | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.r-version }} | |
| - name: Install Linux packages | |
| run: sudo apt-get install -y mono-mcs mono-xbuild libcurl4-openssl-dev libicu-dev pandoc pandoc-citeproc texlive texlive-latex-extra texlive-fonts-extra | |
| shell: bash {0} | |
| - name: Install dependencies | |
| run: | | |
| install.packages(c("remotes", "covr", "rcmdcheck", "rmarkdown", "protViz", "testthat", "knitr", "BiocManager")) | |
| BiocManager::install(c("BiocStyle", "ExperimentHub", "tartar")) | |
| remotes::install_deps(dependencies = TRUE) | |
| shell: Rscript {0} | |
| - name: Check | |
| run: rcmdcheck::rcmdcheck(build_args = "", args = "", error_on = "error", check_dir = "/tmp/rawrr.Rcheck") | |
| shell: Rscript {0} | |
| - name: codecov | |
| run: covr::codecov(type = "all",token=Sys.getenv('CODECOV_TOKEN')) | |
| shell: Rscript {0} | |
| - uses: actions/upload-artifact@v4 | |
| with: | |
| name: rawrr.Rcheck | |
| path: /tmp/rawrr.Rcheck | |
| if-no-files-found: warn |