mia-2dfluid - Online in the Cloud

PROGRAM:

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. 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'.

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