Werk #16428: omd update: Don't Warn About Permissions of Deleted Files

After a file was deleted, omd update would still attempt to change permissions on the file.

 ! Permission:    cannot change 0000 -> 0640 etc/nsca: [Errno 2] No such file or directory: '/omd/sites/cmk/etc/nsca'

Users are no longer prompted with a dialog about these files and the warnings have been removed.

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