#File clitkImageStatistics.ggo
package "clitkImageStatistics"
version "2.0"
#This tool supports multiple images on the input, or even 4D, but all images must be of the same type and dimensions. 
purpose "Compute statistics on an image, or on part of an image specified by a mask and label(s). The tool also supports multichannel images, which is useful, e.g., for vector fields. All channels are processed (separately) by default, but only one channel may be chosen."

option "config"       - "Config file"                                                         string  no
option "verbose"      v "Verbose"                                                             flag    off

option "input"        i "Input image filename"                                                string  no  multiple
option "channel"      c "Image channel to be used in statistics (-1 to process all channels)" int     no  default="-1"
option "mask"         m "Mask image filename (uchar)"                                         string  no
option "label"        l "Label(s) in the mask image to consider"                              int     no  multiple 	default="1"
option "localize"     - "With verbose, write the index coordinates of the max and min"        flag    off
option "histogram"    - "Compute histogram, allows median calculation"                        string  no
option "dvhistogram"  - "Compute dose volume histogram"                                       string  no
option "bins"         - "Number of histogram bins"                                            int     no  default="100"
option "lower"        - "Lower histogram bound"                                               double  no  default="-1000"
option "upper"        - "Upper histogram bound"                                               double  no  default="1000"

option "allow_resize" r "Resize mask if different from input"                                 flag    off