NAME

       mia-2dfluid - Fluid dynamic 2D registration

SYNOPSIS

       mia-2dfluid -i <in-image> -r <ref-image> [options]

DESCRIPTION

       mia-2dfluid This program is used for non-rigid registration based on fluid dynamics. For reference see

              Wollny,  G.  and  Kruggel,  F., 'Computational cost of non-rigid registration algorithms  based on
              fluid dynamics', IEEE Transactions on Medical Imaging, 11(8), pp. 946-952, 2002.

       It uses SSD as the sole registration criterion.

OPTIONS

   File-IO
              -i --in-image=(required, input); io
                     input (test) image to be registered
                      For supported file types see PLUGINS:2dimage/io

              -r --ref-image=(required, input); io
                     reference image
                      For supported file types see PLUGINS:2dimage/io

              -o --out-transformation=(output); io
                     output transformation comprising the registration
                      For supported file types see PLUGINS:2dvf/io

              -d --out-image=(output); io
                     output image deformed according to the transformation
                      For supported file types see PLUGINS:2dimage/io

   Help & Info
              -V --verbose=warning
                     verbosity of output, print  messages  of  given  level  and  higher  priorities.  Supported
                     priorities starting at lowest level are:

                        trace ‐ Function call trace
                        debug ‐ Debug output
                        info ‐ Low level messages
                        message ‐ Normal messages
                        warning ‐ Warnings
                        fail ‐ Report test failures
                        error ‐ Report errors
                        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).

   Registration parameters
              -m --mgstart=16
                     multigrid start size

              -e --epsilon=0.001
                     optimization breaking condition

                 --mu=1
                     elasticity parameter

                 --lambda=1
                     elasticity parameter

                 --elastic
                     use elastic registration

PLUGINS: 2dimage/io

       bmp       BMP 2D-image input/output support. The plug-in supports reading and writing  of  binary  images
                 and  8-bit  gray  scale  images. read-only support is provided for 4-bit gray scale images. The
                 color table is ignored and the pixel values are taken as literal gray scale values.

                     Recognized file extensions:  .BMP, .bmp

                     Supported element types:
                       binary data, unsigned 8 bit

       datapool  Virtual IO to and from the internal data pool

                     Recognized file extensions:  .@

       dicom     2D image io for DICOM

                     Recognized file extensions:  .DCM, .dcm

                     Supported element types:
                       signed 16 bit, unsigned 16 bit

       exr       a 2dimage io plugin for OpenEXR images

                     Recognized file extensions:  .EXR, .exr

                     Supported element types:
                       unsigned 32 bit, floating point 32 bit

       jpg       a 2dimage io plugin for jpeg gray scale images

                     Recognized file extensions:  .JPEG, .JPG, .jpeg, .jpg

                     Supported element types:
                       unsigned 8 bit

       png       a 2dimage io plugin for png images

                     Recognized file extensions:  .PNG, .png

                     Supported element types:
                       binary data, unsigned 8 bit, unsigned 16 bit

       raw       RAW 2D-image output support

                     Recognized file extensions:  .RAW, .raw

                     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

       tif       TIFF 2D-image input/output support

                     Recognized file extensions:  .TIF, .TIFF, .tif, .tiff

                     Supported element types:
                       binary data, unsigned 8 bit, unsigned 16 bit, unsigned 32 bit

       vista     a 2dimage io plugin for vista images

                     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

PLUGINS: 2dvf/io

       datapool  Virtual IO to and from the internal data pool

                     Recognized file extensions:  .@

       exr       a 2dvf io plugin for OpenEXR vfs

                     Recognized file extensions:  .EXR, .exr

                     Supported element types:
                       unsigned 32 bit, floating point 32 bit

       vista     a 2d vector field io plugin for vista

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

                     Supported element types:
                       floating point 32 bit

EXAMPLE

       Register image  test.v  to  image  ref.v  and  write  the  deformation  vector  field  regfield.v.  Start
       registration at the smallest size above 16 pixel.

       mia-2dfluid -i test.v -r ref.v -o regfield.v -s 16

AUTHOR(s)

       Gert Wollny

COPYRIGHT

       This  software is Copyright (c) 1999‐2015 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'.

USER COMMANDS                                        v2.4.7                                       mia-2dfluid(1)