09-13-2001
I have never heard the term "phantom job" before. Can you give us a more clear idea of what you mean?
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I've been trying to set up the phantom protocol just to try it out. I compiled it fine, but when I ran it I got an error that the configuration file wouldn't load. I found that file didn't exist, so I created it with a blank file, but got this:
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LEARN ABOUT DEBIAN
cmtk-detect_adni_phantom
detect_adni_phantom(1) The Computational Morphometry Toolkit detect_adni_phantom(1)
NAME
detect_adni_phantom - Detect ADNI phantom landmarks in phantom image
SYNOPSIS
detect_adni_phantom InputImage OutputXML
DESCRIPTION
This tool detects the locations of all spherical landmarks in a 3D image of the Magphan EMR051 structural imaging phantom (a.k.a. ADNI
Phantom).
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).
Main Options
--write-labels <image-path>
Output label image path. This image contains the mask of detected spheres, each labeled uniquely in their order in CMTK's ADNI phantom
fiducial table. [Default: NONE]
--write-rigid <transformation-path>
Output path for the fitted rigid transformation from phantom space into RAS image standard space. This transformation defines where
each sphere should be in the image. [Default: NONE]
--write-affine <transformation-path>
Output path for the fitted affine transformation from phantom space into RAS image standard space. This is the closest linear-fit
transformation, and as such it includes scale and shear components not present in the fitted rigid transformations. Since these compo-
nents are due to scanner miscalibration and distortion, this transformation DOES NOT specify the correct spehre locations in the
image, but rather, allows for quantification of scale miscalibration. [Default: NONE]
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 detect_adni_phantom(1)