NAME

       mia-3dcost - Evaluate similarity of two 3D images.

SYNOPSIS

       mia-3dcost [options] <PLUGINS:3dimage/fullcost>

DESCRIPTION

       mia-3dcost  This program evauates the cost function as given by the free parameters on the
       command line.

OPTIONS

   Help & Info
              -V --verbose=warning
                     verbosity of output, print messages of given level  and  higher  priorities.
                     Supported priorities starting at lowest level are:
                        info ‐ Low level messages
                        warning ‐ Warnings
                        error ‐ Report errors
                        fail ‐ Report test failures
                        message ‐ Normal messages
                        fatal ‐ Report only fatal errors

                 --copyright
                     print copyright information

              -h --help
                     print this help

              -? --usage
                     print a short help

                 --version
                     print the version number and exit

   Processing
                 --threads=-1
                     Maxiumum number of threads to use for processing,This number should be lower
                     or equal to the number of logical  processor  cores  in  the  machine.  (-1:
                     automatic estimation).

PLUGINS: 3dimage/fullcost

       divcurl   divcurl penalty cost function, supported parameters are:

                     curl = 1 (float)
                       penalty weight on curl.  in [0, 3.40282e+38]

                     div = 1 (float)
                       penalty weight on divergence.  in [0, 3.40282e+38]

                     weight = 1 (float)
                       weight of cost function.  in [-1e+10, 1e+10]

       image     Generalized  image  similarity  cost function that also handles multi-resolution
                 processing.  The  actual  similarity  measure  is  given  es  extra  parameter.,
                 supported parameters are:

                     cost = ssd (string)
                       Cost function kernel.

                     debug = 0 (bool)
                       Save intermediate resuts for debugging.

                     ref = ref.@ (io)
                       Reference image.  For supported file types see PLUGINS:3dimage/io

                     src = src.@ (io)
                       Study image.  For supported file types see PLUGINS:3dimage/io

                     weight = 1 (float)
                       weight of cost function.  in [-1e+10, 1e+10]

       taggedssd Evaluates  the  Sum  of  Squared  Differences  similarity measure by using three
                 tagged image pairs. The cost function value is  evaluated  based  on  all  image
                 pairs,  but the gradient is composed by composing its component based on the tag
                 direction., supported parameters are:

                     refx = (required, io)
                       Reference image  X-tag.  For supported file types see PLUGINS:3dimage/io

                     refy = (required, io)
                       Reference image  Y-tag.  For supported file types see PLUGINS:3dimage/io

                     refz = (required, io)
                       Reference image  Z-tag.  For supported file types see PLUGINS:3dimage/io

                     srcx = (required, io)
                       Study image X-tag.  For supported file types see PLUGINS:3dimage/io

                     srcy = (required, io)
                       Study image Y-tag.  For supported file types see PLUGINS:3dimage/io

                     srcz = (required, io)
                       Study image Z-tag.  For supported file types see PLUGINS:3dimage/io

                     weight = 1 (float)
                       weight of cost function.  in [-1e+10, 1e+10]

PLUGINS: 3dimage/io

       analyze   Analyze 7.5 image

                     Recognized file extensions:  .HDR, .hdr

                     Supported element types:
                       unsigned 8 bit, signed 16 bit, signed  32  bit,  floating  point  32  bit,
                       floating point 64 bit

       datapool  Virtual IO to and from the internal data pool

                     Recognized file extensions:  .@

       dicom     Dicom image series as 3D

                     Recognized file extensions:  .DCM, .dcm

                     Supported element types:
                       unsigned 16 bit

       inria     INRIA image

                     Recognized file extensions:  .INR, .inr

                     Supported element types:
                       signed  8  bit,  unsigned 8 bit, signed 16 bit, unsigned 16 bit, signed 32
                       bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit

       mhd       MetaIO 3D image IO using the VTK implementation (experimental).

                     Recognized file extensions:  .MHA, .MHD, .mha, .mhd

                     Supported element types:
                       signed 8 bit, unsigned 8 bit, signed 16 bit, unsigned 16  bit,  signed  32
                       bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit

       vff       VFF Sun raster format

                     Recognized file extensions:  .VFF, .vff

                     Supported element types:
                       unsigned 8 bit, signed 16 bit

       vista     Vista 3D

                     Recognized file extensions:  .V, .VISTA, .v, .vista

                     Supported element types:
                       binary data, signed 8 bit, unsigned 8 bit, signed 16 bit, unsigned 16 bit,
                       signed 32 bit, unsigned 32 bit, floating point 32 bit, floating  point  64
                       bit

       vti       3D image VTK-XML in- and output (experimental).

                     Recognized file extensions:  .VTI, .vti

                     Supported element types:
                       signed  8  bit,  unsigned 8 bit, signed 16 bit, unsigned 16 bit, signed 32
                       bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit

       vtk       3D VTK image legacy in- and output (experimental).

                     Recognized file extensions:  .VTK, .VTKIMAGE, .vtk, .vtkimage

                     Supported element types:
                       signed 8 bit, unsigned 8 bit, signed 16 bit, unsigned 16  bit,  signed  32
                       bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit

AUTHOR(s)

       Gert Wollny

COPYRIGHT

       This  software  is  Copyright  (c) 1999‐2013 Leipzig, Germany and Madrid, Spain.  It comes
       with  ABSOLUTELY  NO WARRANTY  and  you  may redistribute it under the terms  of  the  GNU
       GENERAL PUBLIC LICENSE Version 3 (or later). For more information run the program with the
       option '--copyright'.