solaris,
It will only repair files named dump.bin. If it gives an error the file is most likely already repaired.
If you try to load a file and it gives you an invalid firmware warning it may be because it has not been repaired. Some people extract their firmware and load it to site without running the repair.
The way you can tell if a file has been repaired or not is to run the list.bat which lists all the files in the firmware.
An unrepaired firmware will have only 3 Files listed in the info:afi section.

A repaired will have 5 files listed.

Full firmware will have 15 to 20 files listed.