Merge branch 'cmdstanr' of github.com:stemangiola/sccomp into cmdstanr #6
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| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | ||
| # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | ||
| on: | ||
| push: | ||
| branches: | ||
| - master | ||
| - main | ||
| - devel | ||
| - RELEASE_** | ||
| pull_request: | ||
| branches: | ||
| - master | ||
| - main | ||
| - devel | ||
| - RELEASE_** | ||
| name: R-CMD-check | ||
| jobs: | ||
| R-CMD-check: | ||
| runs-on: ${{ matrix.config.os }} | ||
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | ||
| strategy: | ||
| fail-fast: false | ||
| matrix: | ||
| config: | ||
| - {os: macos-latest, r: 'auto', bioc: release, cont: ~, rspm: ~} | ||
| - {os: windows-latest, r: 'auto', bioc: release, cont: ~, rspm: ~, rtools: '43'} | ||
| - {os: ubuntu-latest, r: 'devel', bioc: devel, http-user-agent: 'release', cont: ghcr.io/bioconductor/bioconductor_docker:devel, rspm: ~} | ||
| - {os: ubuntu-latest, r: 'release', bioc: devel, cont: ghcr.io/bioconductor/bioconductor_docker:devel, rspm: ~}} | ||
| - {os: ubuntu-latest, r: 'oldrel-1', bioc: devel, cont: ghcr.io/bioconductor/bioconductor_docker:devel, rspm: ~}} | ||
| env: | ||
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | ||
| R_KEEP_PKG_SOURCE: yes | ||
| steps: | ||
| - uses: actions/checkout@v4 | ||
| - uses: r-lib/actions/setup-pandoc@v2 | ||
| - uses: r-lib/actions/setup-r@v2 | ||
| with: | ||
| r-version: ${{ matrix.config.r }} | ||
| rtools-version: '43' | ||
| http-user-agent: ${{ matrix.config.http-user-agent }} | ||
| use-public-rspm: true | ||
| - name: Install CmdStan | ||
| shell: Rscript {0} | ||
| run: | | ||
| install.packages("cmdstanr", repos = c("https://mc-stan.org/r-packages/", getOption("repos"))) | ||
| cmdstanr::check_cmdstan_toolchain(fix = TRUE) | ||
| cmdstanr::install_cmdstan() | ||
| - uses: r-lib/actions/setup-r-dependencies@v2 | ||
| with: | ||
| dependencies: '"hard"' # do not install packages in Suggests | ||
| cache: false | ||
| extra-packages: | | ||
| any::rcmdcheck | ||
| any::knitr | ||
| any::rmarkdown | ||
| any::ggplot2 | ||
| any::tibble | ||
| any::dplyr | ||
| needs: check | ||
| - uses: r-lib/actions/check-r-package@v2 | ||
| with: | ||
| upload-snapshots: true | ||
| - uses: neurogenomics/rworkflows@master | ||
| with: | ||
| run_bioccheck: ${{ false }} | ||
| 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.GITHUB_TOKEN }} | ||
| run_docker: ${{ false }} | ||
| DOCKER_TOKEN: ${{ secrets.DOCKER_TOKEN }} | ||
| runner_os: ${{ runner.os }} | ||
| cache_version: cache-v1 | ||
| docker_registry: ghcr.io | ||
