Merge branch 'main' into revdep_0_3_0 #7
Workflow file for this run
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| # This workflow creates many jobs, run only when a branch is created | |
| on: | |
| push: | |
| branches: | |
| - "revdep*" # never run automatically on main branch | |
| name: revdep | |
| jobs: | |
| matrix: | |
| runs-on: ubuntu-22.04 | |
| outputs: | |
| matrix: ${{ steps.set-matrix.outputs.matrix }} | |
| name: Collect revdeps | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| RSPM: https://packagemanager.rstudio.com/cran/__linux__/bionic/latest | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| # prevent rgl issues because no X11 display is available | |
| RGL_USE_NULL: true | |
| # Begin custom: env vars | |
| # End custom: env vars | |
| steps: | |
| - name: Check rate limits | |
| run: | | |
| curl -s --header "authorization: Bearer ${{ secrets.GITHUB_TOKEN }}" https://api.github.com/rate_limit | |
| shell: bash | |
| - uses: actions/checkout@v3 | |
| # FIXME: Avoid reissuing succesful jobs | |
| # https://docs.github.com/en/free-pro-team@latest/rest/reference/actions#list-jobs-for-a-workflow-run | |
| # https://docs.github.com/en/free-pro-team@latest/rest/reference/actions#workflow-runs | |
| - id: set-matrix | |
| run: | | |
| package <- read.dcf("DESCRIPTION")[, "Package"][[1]] | |
| deps <- tools:::package_dependencies(package, reverse = TRUE, which = c("Depends", "Imports", "LinkingTo", "Suggests"))[[1]] | |
| json <- paste0( | |
| '{"package":[', | |
| paste0('"', deps, '"', collapse = ","), | |
| ']}' | |
| ) | |
| writeLines(json) | |
| writeLines(paste0("matrix=", json), Sys.getenv("GITHUB_OUTPUT")) | |
| shell: Rscript {0} | |
| check-matrix: | |
| runs-on: ubuntu-22.04 | |
| needs: matrix | |
| steps: | |
| - name: Install json2yaml | |
| run: | | |
| sudo npm install -g json2yaml | |
| - name: Check matrix definition | |
| run: | | |
| matrix='${{ needs.matrix.outputs.matrix }}' | |
| echo $matrix | |
| echo $matrix | jq . | |
| echo $matrix | json2yaml | |
| R-CMD-check: | |
| needs: matrix | |
| runs-on: ubuntu-22.04 | |
| name: ${{ matrix.package }} | |
| # Begin custom: services | |
| # End custom: services | |
| strategy: | |
| fail-fast: false | |
| matrix: ${{fromJson(needs.matrix.outputs.matrix)}} | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| RSPM: https://packagemanager.rstudio.com/cran/__linux__/bionic/latest | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| # prevent rgl issues because no X11 display is available | |
| RGL_USE_NULL: true | |
| # Begin custom: env vars | |
| # End custom: env vars | |
| steps: | |
| - name: Check rate limits | |
| run: | | |
| curl -s --header "authorization: Bearer ${{ secrets.GITHUB_TOKEN }}" https://api.github.com/rate_limit | |
| shell: bash | |
| - uses: actions/checkout@v3 | |
| # Begin custom: before install | |
| # End custom: before install | |
| - name: Use RSPM | |
| run: | | |
| mkdir -p /home/runner/work/_temp/Library | |
| echo 'local({release <- system2("lsb_release", "-sc", stdout = TRUE); options(repos=c(CRAN = paste0("https://packagemanager.rstudio.com/all/__linux__/", release, "/latest")), HTTPUserAgent = sprintf("R/%s R (%s)", getRversion(), paste(getRversion(), R.version$platform, R.version$arch, R.version$os)))}); .libPaths("/home/runner/work/_temp/Library")' | sudo tee /etc/R/Rprofile.site | |
| - name: Install remotes | |
| run: | | |
| if (!requireNamespace("curl", quietly = TRUE)) install.packages("curl") | |
| if (!requireNamespace("remotes", quietly = TRUE)) install.packages("remotes") | |
| shell: Rscript {0} | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - name: Install system dependencies | |
| if: runner.os == 'Linux' | |
| run: | | |
| sudo apt-get update -y | |
| Rscript -e 'writeLines(remotes::system_requirements("ubuntu", "22.04")); package <- "${{ matrix.package }}"; deps <- tools::package_dependencies(package, which = "Suggests")[[1]]; lapply(c(package, deps), function(x) { writeLines(remotes::system_requirements("ubuntu", "22.04", package = x)) })' | sort | uniq > .github/deps.sh | |
| cat .github/deps.sh | |
| sudo sh < .github/deps.sh | |
| - name: Install package | |
| run: | | |
| package <- "${{ matrix.package }}" | |
| install.packages(package, dependencies = TRUE) | |
| remotes::install_cran("rcmdcheck") | |
| shell: Rscript {0} | |
| - name: Session info old | |
| run: | | |
| options(width = 100) | |
| if (!requireNamespace("sessioninfo", quietly = TRUE)) install.packages("sessioninfo") | |
| pkgs <- installed.packages()[, "Package"] | |
| sessioninfo::session_info(pkgs, include_base = TRUE) | |
| shell: Rscript {0} | |
| # Begin custom: after install | |
| # End custom: after install | |
| - name: Check old | |
| env: | |
| _R_CHECK_CRAN_INCOMING_: false | |
| _R_CHECK_SYSTEM_CLOCK_: false | |
| _R_CHECK_FUTURE_FILE_TIMESTAMPS_: false | |
| # Avoid downloading binary package from RSPM | |
| run: | | |
| package <- "${{ matrix.package }}" | |
| options(HTTPUserAgent = "gha") | |
| path <- download.packages(package, destdir = ".github")[, 2] | |
| print(path) | |
| dir <- file.path("revdep", package) | |
| dir.create(dir, showWarnings = FALSE, recursive = TRUE) | |
| check <- rcmdcheck::rcmdcheck(path, args = c("--no-manual", "--as-cran"), error_on = "never", check_dir = file.path(dir, "check")) | |
| file.rename(file.path(dir, "check"), file.path(dir, "old")) | |
| saveRDS(check, file.path(dir, "old.rds")) | |
| shell: Rscript {0} | |
| - name: Install local package | |
| run: | | |
| remotes::install_local(".", force = TRUE) | |
| shell: Rscript {0} | |
| - name: Session info new | |
| run: | | |
| options(width = 100) | |
| pkgs <- installed.packages()[, "Package"] | |
| sessioninfo::session_info(pkgs, include_base = TRUE) | |
| shell: Rscript {0} | |
| - name: Check new | |
| env: | |
| _R_CHECK_CRAN_INCOMING_: false | |
| _R_CHECK_SYSTEM_CLOCK_: false | |
| _R_CHECK_FUTURE_FILE_TIMESTAMPS_: false | |
| run: | | |
| package <- "${{ matrix.package }}" | |
| path <- dir(".github", pattern = paste0("^", package), full.names = TRUE)[[1]] | |
| print(path) | |
| dir <- file.path("revdep", package) | |
| check <- rcmdcheck::rcmdcheck(path, args = c("--no-manual", "--as-cran"), error_on = "never", check_dir = file.path(dir, "check")) | |
| file.rename(file.path(dir, "check"), file.path(dir, "new")) | |
| saveRDS(check, file.path(dir, "new.rds")) | |
| shell: Rscript {0} | |
| - name: Compare | |
| run: | | |
| package <- "${{ matrix.package }}" | |
| dir <- file.path("revdep", package) | |
| old <- readRDS(file.path(dir, "old.rds")) | |
| new <- readRDS(file.path(dir, "new.rds")) | |
| compare <- rcmdcheck::compare_checks(old, new) | |
| compare | |
| cmp <- compare$cmp | |
| if (!identical(cmp[cmp$which == "old", "output"], cmp[cmp$which == "new", "output"])) { | |
| if (!requireNamespace("waldo", quietly = TRUE)) install.packages("waldo") | |
| print(waldo::compare(old, new)) | |
| stop("Check output differs.") | |
| } | |
| shell: Rscript {0} | |
| - name: Upload check results | |
| if: failure() | |
| uses: actions/upload-artifact@main | |
| with: | |
| name: ${{ matrix.package }}-results | |
| path: revdep/${{ matrix.package }} | |
| - name: Check rate limits | |
| if: always() | |
| run: | | |
| curl -s --header "authorization: Bearer ${{ secrets.GITHUB_TOKEN }}" https://api.github.com/rate_limit | |
| shell: bash |