02-04-2013
PLEASE use code tags as demanded by forum rules.
I'm lost, too. I guess it's two threads in one? Pls post (for each sub thread) input and output samples, and a comprehensible description of how you expect things to work on input to produce the desired output.
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LEARN ABOUT DEBIAN
cmtk-destripe
destripe(1) The Computational Morphometry Toolkit destripe(1)
NAME
destripe - Destripe volume image data.
SYNOPSIS
destripe InputImage OutputImage
DESCRIPTION
This program corrects stripe artifacts in acquired image stacks which can result from between-slice intensity scale differences.
OPTIONS
Global Toolkit Options (these are shared by all CMTK tools)
--help
Write list of basic command line options to standard output.
--help-all
Write complete list of basic and advanced command line options to standard output.
--wiki
Write list of command line options to standard output in MediaWiki markup.
--man
Write man page source in 'nroff' markup to standard output.
--version
Write toolkit version to standard output.
--echo
Write the current command line to standard output.
--verbose-level <integer>
Set verbosity level.
--verbose, -v
Increment verbosity level by 1 (deprecated; supported for backward compatibility).
--threads <integer>
Set maximum number of parallel threads (for POSIX threads and OpenMP).
Slice Orientation
--slice-axis
Define slice direction axis: this is the through-slice direction of the acquisition. Supported values: "guess-from-input", "axial",
"sagittal", "coronal", "slice-x", "slice-y", "slice-z", where the default is "guess-from-input", or use one of the following:
--guess-from-input
Guess from input image [This is the default]
--axial, -a
Sliced axial images
--sagittal, -s
Sliced sagittal images
--coronal, -c
Sliced coronal images
--slice-x, -x
Sliced along x axis
--slice-y, -y
Sliced along y axis
--slice-z, -z
Sliced along z axis
--kernel-fwhm <double>
Gaussian kernel full width at half maximum (FWHM) in units of slice indexes. [Default: 1]
--kernel-radius <integer>
Truncate kernel radius to this many samples. By default, kernel width is determined to limit approximation error. [Default: 0]
--write-float
Write output image in floating point representation. By default, write using input image pixel data type.
AUTHORS
Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, and Daniel B. Russakoff
LICENSE
http://www.fsf.org/licensing/licenses/gpl.html
BUGS
Report bugs at http://nitrc.org/projects/cmtk/
ACKNOWLEDGMENTS
From April 2009 through September 2011, CMTK Development and Maintenance was supported by the National Institute of Biomedical Imaging and
Bioengineering under Grant No.R01 EB008381 (PI: Torsten Rohlfing).
CMTK 2.2.2 Jul 20 2012 destripe(1)