fix for windows test

.github/workflows/r.yaml

@@ -1,4 +1,3 @@
-
 name: R
 
 on:
@@ -20,17 +19,18 @@ jobs:
 
     steps:
       - uses: actions/checkout@v3
+
       - name: Set up R ${{ matrix.r-version }}
         uses: r-lib/actions/setup-r@v2
         with:
           r-version: ${{ matrix.r-version }}
 
       - name: Install system dependencies
+        if: runner.os == 'Linux'
         run: |
-          if [[ "$RUNNER_OS" == "Linux" ]]; then
-            sudo apt-get update
-            sudo apt-get install -y libcurl4-openssl-dev libssl-dev libxml2-dev
-          fi
+          sudo apt-get update
+          sudo apt-get install -y libcurl4-openssl-dev libssl-dev libxml2-dev
+        shell: bash
 
       - name: Install dependencies
         uses: r-lib/actions/setup-r-dependencies@v2
@@ -40,16 +40,27 @@ jobs:
 
       - name: Install Bioconductor BiocCheck
         run: |
+          if (Sys.info()[['sysname']] == 'Windows') install.packages('Rtools')
           install.packages("BiocManager")
           BiocManager::install("BiocCheck")
         shell: Rscript {0}
 
-      - name: lme4 from source
-        run: R -q -e 'install.packages(c("lme4"), type = "source")'
+      - name: Install lme4
+        run: |
+          if (Sys.info()[['sysname']] == 'Windows') {
+            install.packages("lme4", type = "binary")
+          } else {
+            install.packages("lme4", type = "source")
+          }
+        shell: Rscript {0}
 
       - name: Install pandoc
         uses: r-lib/actions/setup-pandoc@v2
 
+      - name: Normalize line endings
+        run: |
+          git config --global core.autocrlf false
+
       - name: Tests
         uses: r-lib/actions/check-r-package@v2
         with:
@@ -60,4 +71,4 @@ jobs:
 
       - name: Run BiocCheck
         run: |
-          Rscript -e 'BiocCheck::BiocCheck(".")'
+          Rscript -e 'BiocCheck::BiocCheck(".")'