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Index: system.module
===================================================================
--- modules/system/system.module	(revision 8648)
+++ modules/system/system.module	(working copy)
@@ -2238,7 +2238,7 @@
     }
     else {
       // File is not found in file system, so delete record from the system table.
-      $delete->condition('filename', $file->filename);
+      //$delete->condition('filename', $file->filename);
     }
   }