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. It uses SSD as the sole registration criterion.

OPTIONS

File-IO

-i --in-image=(input, required); io

input (test) image to be registered For supported file types see PLUGINS:2dimage/io

-r --ref-image=(input, required); 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:

info - Low level messages

trace - Function call trace

fail - Report test failures

warning - Warnings

error - Report errors

debug - Debug output

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).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 sizemultigrid start size

-e --epsilon=0.001

optimization breaking conditionoptimization breaking condition

--mu=1

elasticity parameterelasticity parameter

--lambda=1

elasticity parameterelasticity parameter

--elastic

use elastic registration

PLUGINS: 2dimage/io

bmp

BMP 2D-image input/output support

Recognized file extensions: .BMP, .bmp

 

Supported element types:

binary data, unsigned 8 bit, unsigned 16 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'.