mia-2dfluid(1) 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. 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'.