Removing renv - not working also defet the purpose of the CI checks i guess..

Author: patrickCNMartin

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

@@ -1,39 +1,68 @@
-name: R CMD Check
 on:
   push:
-    branches: [main]
+    branches: [main, master]
   pull_request:
-    branches: [main]
+  release:
+    types: [published]
+  workflow_dispatch:
+
+name: R CMD Check
+
+permissions: read-all
 
 jobs:
-  R-CMD-Check:
+  
+  check-package:
+    
     runs-on: ubuntu-latest
+
+    # Run checks with R-release, R-devel, and R-oldrelease.
+    strategy:
+      # Make sure each job runs independently. When `fail-fast` is true 
+      # (by default) all jobs in the matrix are cancelled as soon as one fails.
+      fail-fast: false
+      matrix:
+        r-version: ['release', 'devel', 'oldrel']
+
+    # Override the default job name to display the current R version name in
+    # parentheses (e.g. "check-package (R-release)").
+    name: "check-package (R-${{ matrix.r-version }})"
+
     steps:
-      - uses: actions/checkout@v4
-      - name: Set up R
+      # Pull the latest changes from the repository down to the runner.
+      - name: Checkout
+        uses: actions/checkout@v4
+
+      # Install R and any system dependencies.
+      - name: Setup R
         uses: r-lib/actions/setup-r@v2
         with:
-          r-version: '4.5.1' # Match your Docker image’s R version
-      - name: Set RENV_PATHS_ROOT
-        shell: bash
-        run: |
-         echo "RENV_PATHS_ROOT=${{ runner.temp }}/renv" >> $GITHUB_ENV
-      - name: Install and activate renv
-        run: |
-         install.packages("renv")
-         renv::activate()
-        shell: Rscript {0}
-      - name: Get R and OS version
-        id: get-version
-        run: |
-         cat("##[set-output name=os-version;]", sessionInfo()$running, "\n", sep = "")
-         cat("##[set-output name=r-version;]", R.Version()$version.string, sep = "")
-        shell: Rscript {0}
-      - name: Restore Renv package cache
-        uses: actions/cache@v4
+          # Install the R version specified by the current strategy.
+          r-version: ${{ matrix.r-version }}
+          # Use pre-built binaries from Posit's public package manager to 
+          # speed up R dependency installation.
+          use-public-rspm: true
+          # Specify additional repositories to pull dependencies not
+          # available on CRAN (i.e. `BPCells`).
+          # extra-repositories: 'https://bnprks.r-universe.dev'
+      
+      # Install R dependencies.
+      - name: Install Dependencies
+        uses: r-lib/actions/setup-r-dependencies@v2
         with:
-          path: ${{ env.RENV_PATHS_ROOT }}
-          key: ${{ steps.get-version.outputs.os-version }}-${{ steps.get-version.outputs.r-version }}-${{ inputs.cache-version }}-${{ hashFiles('renv.lock') }}
-          restore-keys: ${{ steps.get-version.outputs.os-version }}-${{ steps.get-version.outputs.r-version }}-${{inputs.cache-version }}-
-      - name: Run R CMD check
-        uses: r-lib/actions/check-r-package@v2
+          extra-packages: 
+            any::rcmdcheck
+            any::pkgdown
+          # Installed packages are cached by default - force an upgrade to the 
+          # latest version of all dependencies.
+          upgrade: 'TRUE'
+      
+      # Run CRAN checks - fails if any ERRORs or WARNINGs are raised in which 
+      # case the `rcmdcheck` output will be uploaded as an artifact.
+      - name: Run Checks
+        uses: r-lib/actions/check-r-package@v2
+        env:
+            _R_CHECK_PKG_SIZES_: true
+            _R_CHECK_RD_XREFS_: true
+            _R_CHECK_CRAN_INCOMING_NOTE_GNU_MAKE_: true
+            _R_CHECK_PACKAGE_DATASETS_SUPPRESS_NOTES_: true

.github/workflows/pkgdown.yaml

@@ -14,12 +14,17 @@ permissions: read-all
 jobs:
   pkgdown:
     runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        r-version: ['release', 'devel', 'oldrel']
     concurrency:
       group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }}
     env:
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
     permissions:
       contents: write
+    
     steps:
       - uses: actions/checkout@v4
 
@@ -29,7 +34,14 @@ jobs:
         with:
           use-public-rspm: true
 
-      - uses: r-lib/actions/setup-renv@v2
+      
+      - name: Install Dependencies
+        uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: 
+            any::rcmdcheck
+            any::pkgdown
+          upgrade: 'TRUE'
 
 
       - name: Build site