Merge pull request #40 from fmicompbio/update-cache-action

Update actions/cache

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

@@ -57,7 +57,7 @@ jobs:
 
       - name: Cache R packages
         if: runner.os != 'Windows' && matrix.config.image == null
-        uses: actions/cache@v1
+        uses: actions/cache@v4
         with:
           path: ${{ env.R_LIBS_USER }}
           key: ${{ env.cache-version }}-${{ runner.os }}-bioc-${{ matrix.config.bioc }}-${{ hashFiles('depends.Rds') }}
@@ -78,7 +78,12 @@ jobs:
         run: |
           brew install harfbuzz
           brew install fribidi
-          brew install jpeg
+          brew install jpeg fftw
+          mkdir -p /Users/runner/.R
+          touch /Users/runner/.R/Makevars
+          echo 'export CPPFLAGS="-I/opt/homebrew/opt/jpeg/include"' >> /Users/runner/.R/Makevars
+          echo 'export LDFLAGS="-L/opt/homebrew/opt/jpeg/lib"' >> /Users/runner/.R/Makevars
+          echo 'export PKG_CONFIG_PATH="/opt/homebrew/opt/jpeg/lib/pkgconfig"' >> /Users/runner/.R/Makevars
           Rscript -e 'BiocManager::install(c("GenomeInfoDbData"), type = "source")'
           Rscript -e 'BiocManager::install(c("GenomicFeatures"), type = "source")'