Do not delete certificate on reconfiguration

setup.sh

@@ -6,9 +6,8 @@ source config.sh
 # and configurations.
 function remove_all_configs() {
     echo "Removing all previous configs..."
-    git clean -fd
-    git pull
     rm -rf $MUMBLE_DIR $JITSI_DIR $NOVNC_DIR
+    git pull
     echo "Removed all repositories."
 }