Fix: the file name database is damaged
Symptom
You see an error message similar to this:
The file name database is damaged.
How to fix
Delete the file name database files:
del "%LOCALAPPDATA%\MiKTeX\2.9\miktex\data\le\*.fndb-5"
del "%LOCALAPPDATA%\MiKTeX\2.9\miktex\data\le\*.fndb-5.log"
del "%PROGRAMDATA%\MiKTeX\2.9\miktex\data\le\*.fndb-5"
del "%PROGRAMDATA%\MiKTeX\2.9\miktex\data\le\*.fndb-5.log"
Recreate the file name database:
initexmf -u
initexmf --admin -u