app: Clean up leftover removes after updates too

app/xdg-app-builtins-update.c

@@ -109,6 +109,8 @@ xdg_app_builtin_update_runtime (int argc, char **argv, GCancellable *cancellable
         }
     }
 
+  xdg_app_dir_cleanup_removed (dir, cancellable, NULL);
+
   return TRUE;
 }
 
@@ -182,5 +184,7 @@ xdg_app_builtin_update_app (int argc, char **argv, GCancellable *cancellable, GE
         return FALSE;
     }
 
+  xdg_app_dir_cleanup_removed (dir, cancellable, NULL);
+
   return  TRUE;
 }