.TH mia\-2dfluid 1 "v2.4.3" "USER COMMANDS" .SH NAME mia\-2dfluid \- Fluid dynamic 2D registration .SH SYNOPSIS .B mia\-2dfluid \-i \-r [options] .SH DESCRIPTION .B mia\-2dfluid This program is used for non-rigid registration based on fluid dynamics. It uses SSD as the sole registration criterion. .SH OPTIONS .SS File-IO .RS .IP "\-i \-\-in-image=(input, required); io" input (test) image to be registered For supported file types see PLUGINS:2dimage/io .IP "\-r \-\-ref-image=(input, required); io" reference image For supported file types see PLUGINS:2dimage/io .IP "\-o \-\-out-transformation=(output); io" output transformation comprising the registration For supported file types see PLUGINS:2dvf/io .IP "\-d \-\-out-image=(output); io" output image deformed according to the transformation For supported file types see PLUGINS:2dimage/io .RE .SS Help & Info .RS .IP "\-V \-\-verbose=warning" verbosity of output, print messages of given level and higher priorities. Supported priorities starting at lowest level are: .RS 10 .I info \(hy Low level messages .RE .RS 10 .I trace \(hy Function call trace .RE .RS 10 .I fail \(hy Report test failures .RE .RS 10 .I warning \(hy Warnings .RE .RS 10 .I error \(hy Report errors .RE .RS 10 .I debug \(hy Debug output .RE .RS 10 .I message \(hy Normal messages .RE .RS 10 .I fatal \(hy Report only fatal errors .RE .IP " \-\-copyright" print copyright information .IP "\-h \-\-help" print this help .IP "\-? \-\-usage" print a short help .IP " \-\-version" print the version number and exit .RE .SS Processing .RS .IP " \-\-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). .RE .SS Registration parameters .RS .IP "\-m \-\-mgstart=16" multigrid start sizemultigrid start size .IP "\-e \-\-epsilon=0.001" optimization breaking conditionoptimization breaking condition .IP " \-\-mu=1" elasticity parameterelasticity parameter .IP " \-\-lambda=1" elasticity parameterelasticity parameter .IP " \-\-elastic" use elastic registration .RE .SH PLUGINS: 2dimage/io .TP 10 .B 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. .P .RS 14 Recognized file extensions: .BMP, .bmp .RE .RS 14 Supported element types: .RS 2 binary data, unsigned 8 bit .RE .RE .TP 10 .B datapool Virtual IO to and from the internal data pool .P .RS 14 Recognized file extensions: .@ .RE .TP 10 .B dicom 2D image io for DICOM .P .RS 14 Recognized file extensions: .DCM, .dcm .RE .RS 14 Supported element types: .RS 2 signed 16 bit, unsigned 16 bit .RE .RE .TP 10 .B exr a 2dimage io plugin for OpenEXR images .P .RS 14 Recognized file extensions: .EXR, .exr .RE .RS 14 Supported element types: .RS 2 unsigned 32 bit, floating point 32 bit .RE .RE .TP 10 .B jpg a 2dimage io plugin for jpeg gray scale images .P .RS 14 Recognized file extensions: .JPEG, .JPG, .jpeg, .jpg .RE .RS 14 Supported element types: .RS 2 unsigned 8 bit .RE .RE .TP 10 .B png a 2dimage io plugin for png images .P .RS 14 Recognized file extensions: .PNG, .png .RE .RS 14 Supported element types: .RS 2 binary data, unsigned 8 bit, unsigned 16 bit .RE .RE .TP 10 .B raw RAW 2D-image output support .P .RS 14 Recognized file extensions: .RAW, .raw .RE .RS 14 Supported element types: .RS 2 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 .RE .RE .TP 10 .B tif TIFF 2D-image input/output support .P .RS 14 Recognized file extensions: .TIF, .TIFF, .tif, .tiff .RE .RS 14 Supported element types: .RS 2 binary data, unsigned 8 bit, unsigned 16 bit, unsigned 32 bit .RE .RE .TP 10 .B vista a 2dimage io plugin for vista images .P .RS 14 Recognized file extensions: .-, .V, .VISTA, .v, .vista .RE .RS 14 Supported element types: .RS 2 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 .RE .RE .SH PLUGINS: 2dvf/io .TP 10 .B datapool Virtual IO to and from the internal data pool .P .RS 14 Recognized file extensions: .@ .RE .TP 10 .B exr a 2dvf io plugin for OpenEXR vfs .P .RS 14 Recognized file extensions: .EXR, .exr .RE .RS 14 Supported element types: .RS 2 unsigned 32 bit, floating point 32 bit .RE .RE .TP 10 .B vista a 2d vector field io plugin for vista .P .RS 14 Recognized file extensions: .V, .VF, .v, .vf .RE .RS 14 Supported element types: .RS 2 floating point 32 bit .RE .RE .SH 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. .HP mia\-2dfluid \-i test.v \-r ref.v \-o regfield.v \-s 16 .SH AUTHOR(s) Gert Wollny .SH COPYRIGHT This software is Copyright (c) 1999\(hy2015 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'.