The alert "Some files could not be scanned" means the password protected file cannot be scanned because, just as how it sounds, it's password protected. Files that cannot be scanned are not moved to the vault. That means, Realplayre.exe is not in the vault and the compressed archive. It's a different one--something that is detected weeks ago (February 5th to be specific).
Deleting any file in the Chest deletes the file from the harddisk as well. It's best to keep Realplayre.exe in Chest while you still cannot assure the integrity of the file.