Move sysdeps down to prevent pak from hanging

Author: jeroen

entrypoint.sh

@@ -41,11 +41,6 @@ fi
 DESCRIPTION="${PKGDIR}/DESCRIPTION"
 sed '/^[[:space:]]*$/d' -i "${DESCRIPTION}" # deletes empty lines at end of DESCRIPTION
 
-# Get system dependencies
-echo "::group::Installing system dependencies"
-Rscript --no-init-file -e "buildtools::install_sysdeps('$PKGDIR')"
-echo "::endgroup::"
-
 # Experimental: support pkgs like rJava
 if test -f "$PKGDIR/bootstrap.R"; then
   echo "Trying to run $PKGDIR/bootstrap.R"
@@ -110,6 +105,12 @@ echo "::group::Installing R dependencies"
 Rscript --no-init-file -e "buildtools::install_dependencies('$PKGDIR')"
 echo "::endgroup::"
 
+# Get system dependencies
+# We do this after installing dependencies to prevent pak from hanging
+echo "::group::Installing system dependencies"
+Rscript --no-init-file -e "buildtools::install_sysdeps('$PKGDIR')"
+echo "::endgroup::"
+
 # These are set in install_dependencies() above
 if [ -f "/NEED_RJAVA" ]; then
   echo "NEED_RJAVA=true" >> $GITHUB_OUTPUT