Revert workflow file change

Author: skitsy24

.github/workflows/R-CMD-check.yaml

@@ -27,17 +27,18 @@ jobs:
           # jobs (mainly test-coverage) to run on every commit in PRs so as to not slow down dev.
           # GHA does run these jobs concurrently but even so reducing the load seems like a good idea.
           - {os: windows-latest, r: 'devel'}
-          - {os: macos-15-intel, r: 'release'}
-          - {os: macos-15, r: 'release'}
+          - {os: macos-15-intel, r: 'release'}    
+          - {os: macos-15, r: 'release'}    
           # TODO(remotes>2.5.0): Use 24.04[noble?]
-          - {os: ubuntu-22.04, r: 'release'}
-          # - {os: ubuntu-22.04,   r: 'devel'}
+          - {os: ubuntu-22.04, r: 'release', rspm: "https://packagemanager.rstudio.com/cran/__linux__/jammy/latest"}
+          # - {os: ubuntu-22.04,   r: 'devel', rspm: "https://packagemanager.rstudio.com/cran/__linux__/jammy/latest", http-user-agent: "R/4.1.0 (ubuntu-22.04) R (4.1.0 x86_64-pc-linux-gnu x86_64 linux-gnu) on GitHub Actions" }
           #   GLCI covers R-devel; no need to delay contributors in dev due to changes in R-devel in recent days
 
     env:
+      R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
+      RSPM: ${{ matrix.config.rspm }}
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
       _R_CHECK_RD_CHECKRD_MINLEVEL_: -Inf
-      _R_CHECK_RD_CONTENTS_VALUE_: 1
 
     steps:
       - uses: actions/checkout@v6
@@ -46,6 +47,29 @@ jobs:
         with:
           r-version: ${{ matrix.config.r }}
 
+
+      - name: Query dependencies
+        run: |
+          install.packages('remotes')
+          saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
+          writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version")
+        shell: Rscript {0}
+
+      - name: Restore R package cache
+        uses: actions/cache@v5
+        with:
+          path: ${{ env.R_LIBS_USER }}
+          key: ${{ runner.os }}-${{ runner.arch }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }}
+          restore-keys: ${{ runner.os }}-${{ runner.arch }}-${{ hashFiles('.github/R-version') }}-1-
+
+      - name: Install system dependencies
+        if: runner.os == 'Linux'
+        run: |
+          while read -r cmd
+          do
+            eval sudo $cmd
+          done < <(Rscript -e 'writeLines(remotes::system_requirements("ubuntu", "22.04"))')
+
       - name: Install R Package Build Dependencies on MacOS, from https://github.com/stan-dev/cmdstanr/pull/1072/files
         if: runner.os == 'macOS'
         uses: r-hub/actions/setup-r-sysreqs@v1
@@ -66,8 +90,23 @@ jobs:
             fi
           fi # otherwise R-bundled runtime is fine
 
-      - uses: yihui/actions/setup-r-dependencies@HEAD
+      - name: Install dependencies
+        run: |
+          remotes::install_deps(dependencies = TRUE)
+          remotes::install_cran("rcmdcheck")
+        shell: Rscript {0}
+
+      - name: Check
+        env:
+          _R_CHECK_CRAN_INCOMING_REMOTE_: false
+        run: |
+          options(crayon.enabled = TRUE)
+          rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check")
+        shell: Rscript {0}
 
-      - uses: yihui/actions/check-r-package@HEAD
+      - name: Upload check results
+        if: failure()
+        uses: actions/upload-artifact@main
         with:
-          check-args: "--no-manual --as-cran"
+          name: ${{ runner.os }}-r${{ matrix.config.r }}-results
+          path: check