NAME

       mia-3ddeform - Transform a 3D image by means of a vector field.

SYNOPSIS

       mia-3ddeform -i <in-image> -o <out-image> -t <transformation> [options]

DESCRIPTION

       mia-3ddeform Transform a 3D image by applying a given 3D transformation that is defined by
       a 3D vector field v according to x:=x-v(x)

OPTIONS

              -i --in-image=(required)
                     input image  For supported file types see PLUGINS:3dimage/io

              -o --out-image=(required)
                     transformed image  For supported file types see PLUGINS:3dimage/io

              -t --transformation=(required)
                     transformation vector field  For supported file types see PLUGINS:3dvf/io

              -p --interpolator=bspline:d=3
                     image interpolator kernel  For supported plugins see PLUGINS:1d/splinekernel

   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: 1d/splinekernel

       bspline   B-spline kernel creation , supported parameters are:

                     d = 3 (int)
                       Spline degree.  in [0, 5]

       omoms     OMoms-spline kernel creation, supported parameters are:

                     d = 3 (int)
                       Spline degree.  in [3, 3]

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

PLUGINS: 3dvf/io

       cvista    obsolete 3d vector field io plugin  for  range  compressend  vista  (saving  not
                 supported)

                     Recognized file extensions:  .CVF, .cvf

                     Supported element types:
                       floating point 32 bit

       datapool  Virtual IO to and from the internal data pool

                     Recognized file extensions:  .@

       vista     a 3d vector field io plugin for vista

                     Recognized file extensions:  .V, .VF, .v, .vf

                     Supported element types:
                       floating point 32 bit

       vtk       3D Vector field in- and output (experimental). No attributes are stored or read.

                     Recognized file extensions:  .VTK, .VTKVF, .vtk, .vtkvf

                     Supported element types:
                       floating point 32 bit

EXAMPLE

       Transform  an  image  input.v by the transformation defined by the vector field field.v by
       using bspline interpolation of degree 4 and store the result in output.v

       mia-3ddeform -i input.v -t field.v  -o output.v  -p bspline:d=4

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'.