jip is the name of a stand-alone command-oriented program for accomplishing basic image manipulations functions. This program is something like Matlab, without all the bells and whistles but also with easier syntax and no purchase required. The program can be used interactively by typing "jip" and then entering commands like this:
unix% jip unix% jip
jip > help jip > read input.nii
jip > write output.bshort
jip > bye
However, a more useful method is to create a series of commands with an editor and then invoke jip by referencing the command file and also passing arguments from the unix/linux command line. Within the command file, each argument is assigned as $1, $2, ...
Syntax: executable [command file name] arg1 arg2 arg3 ... arg9
command command file "smooth.com"
unix% jip smooth.com data 1.5 read $1.nii