CI: install SeuratData after setup-r-dependencies

setup-r-dependencies installs pre-built binary packages even on Linux
PMBio · Sep 11, 2023 · 83a01c3 · 83a01c3
1 parent c1c18e7
commit 83a01c3
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Showing 2 changed files with 9 additions and 9 deletions.
diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml
@@ -37,14 +37,14 @@ jobs:
         if: runner.os == 'macOS'
         run: brew install hdf5
 
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: rcmdcheck
+
       - name: Install SeuratData
         if: always()
         run: Rscript -e "install.packages(c('remotes', 'Seurat'), repos = 'http://cran.us.r-project.org'); remotes:::install_github('satijalab/seurat-data')"
         shell: bash
-
-      - uses: r-lib/actions/setup-r-dependencies@v2
-        with:
-          extra-packages: rcmdcheck
 
       - uses: r-lib/actions/check-r-package@v2
 

diff --git a/.github/workflows/pkgdown.yaml b/.github/workflows/pkgdown.yaml
@@ -8,7 +8,7 @@ name: pkgdown
 
 jobs:
   pkgdown:
-    runs-on: macOS-latest
+    runs-on: ubuntu-latest
     env:
       GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
     steps:
@@ -20,14 +20,14 @@ jobs:
         with:
           use-public-rspm: true
 
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::pkgdown, local::.
+
       - name: Install SeuratData
         if: always()
         run: Rscript -e "install.packages(c('remotes', 'Seurat'), repos = 'http://cran.us.r-project.org'); remotes:::install_github('satijalab/seurat-data')"
         shell: bash
-
-      - uses: r-lib/actions/setup-r-dependencies@v2
-        with:
-          extra-packages: any::pkgdown
 
       - name: Build site
         run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)