update pkgdown.yaml

waldronlab · Nov 22, 2023 · 778f46a · 778f46a
1 parent 3b92f85
commit 778f46a
Showing 1 changed file with 15 additions and 21 deletions.
diff --git a/.github/workflows/pkgdown.yaml b/.github/workflows/pkgdown.yaml
@@ -2,16 +2,21 @@ name: build
 on:
   push:
     branches:
-      - devel
+      - RELEASE_3_18
+
+env:
+  cache-version: v1
 
 jobs:
   build:
-    runs-on: ubuntu-latest
-    container: bioconductor/bioconductor_docker:latest
+    runs-on: ubuntu-22.04
+    container: bioconductor/bioconductor_docker:RELEASE_3_18
 
     env:
       R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
+      R_REMOTES_STANDALONE: TRUE
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+      CRAN: https://packagemanager.posit.co/cran/__linux__/jammy/latest
 
     steps:
       - name: Checkout Repository
@@ -25,33 +30,22 @@ jobs:
 
       - name: Cache R packages
         if: runner.os != 'Windows'
-        uses: actions/cache@v2
+        uses: actions/cache@v3
         with:
           path: /usr/local/lib/R/site-library
-          key: ${{ runner.os }}-r-1-${{ hashFiles('.github/depends.Rds') }}
-          restore-keys: ${{ runner.os }}-r-1-
-
-      # This lets us augment with additional dependencies
-      - name: Install system dependencies
-        if: runner.os == 'Linux'
-        env:
-          RHUB_PLATFORM: linux-x86_64-ubuntu-gcc
-        run: |
-          Rscript -e "remotes::install_github('r-hub/sysreqs')"
-          sysreqs=$(Rscript -e "cat(sysreqs::sysreq_commands('DESCRIPTION'))")
-          sudo -s eval "$sysreqs"
+          key: ${{ env.cache-version }}-${{ runner.os }}-r-${{ hashFiles('.github/depends.Rds') }}
+          restore-keys: ${{ env.cache-version }}-${{ runner.os }}-r-
 
-      - name: Install dependencies
+      - name: Install Package Dependencies
         run: |
-          options(repos = c(CRAN = "https://packagemanager.posit.co/cran/__linux__/jammy/latest"))
-          remotes::install_deps(dependencies = TRUE, repos = BiocManager::repositories())
+          remotes::install_local(dependencies = TRUE, repos = BiocManager::repositories(), build_vignettes = TRUE, upgrade = TRUE)
           BiocManager::install(c("rcmdcheck", "pkgdown"), ask = FALSE, update = TRUE)
         shell: Rscript {0}
 
-      - name: Check
+      - name: Check Package
         env:
           _R_CHECK_CRAN_INCOMING_REMOTE_: false
-        run: rcmdcheck::rcmdcheck(args = c("--no-manual"), error_on = "warning", check_dir = "check")
+        run: rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "warning", check_dir = "check")
         shell: Rscript {0}
 
       - name: generate codecov report