Merge pull request #298 from nmfs-opensci/copilot/fix-unbound-variable-error

Fix R_HOME unbound variable in install-r-packages.sh

Author: eeholmes

scripts/install-r-packages.sh

@@ -18,6 +18,12 @@ fi
 # Main script execution as NB_USER
 echo "Running install-r-packages.sh as ${NB_USER}"
 
+# Get R_HOME from R itself if not already set
+if [[ -z "${R_HOME:-}" ]]; then
+    export R_HOME="$(R RHOME)"
+    echo "  R_HOME set to: ${R_HOME}"
+fi
+
 # Make sure we install to the site-library
 echo ".libPaths('${R_HOME}/site-library')" > /tmp/rprofile.site
 export R_PROFILE=/tmp/rprofile.site