Online Help:

Usage: /vol/vssp/local/trees/amma-4/linux/bin/makeQuery [options] 
   -optload () [] Load options from a file.  
   -optsave () [] Save options to a file.  
   -i () [(null)] Input query file 
   -o (query.ppm) [query.ppm] output dir for query 
   -s (Mean) [Mean] statistic [Var||Mean||None] 
   -w (9) [9] window size 
   -help (TRUE) [FALSE] Print usage information. 

Dependancies:
   -i is compulsory.