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reorient - Reorientation

reorient(1) The Computational Morphometry Toolkit reorient(1)

NAME

reorient - Reorientation

SYNOPSIS

reorient [options] new-orientation infile outfile

DESCRIPTION

Convert between image orientations, i.e., physically re-order pixel array and adapt stored anatomical orientation information

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

--input-orientation <string>, -i <string>
Override input orientation. This is a three-letter code, e.g., 'RAS', 'LPI', etc. [Default: NONE]
--output-orientation <string>, -o <string>
Override output orientation. Default is 'RAS', or the closest match supported by the output image file format [Default: NONE]
--output-space <string>
Override output coordinate space (e.g., 'RAS', 'LAS', 'LPS'). This does not affect the array order. Default is to write image in the input image space. [Default: NONE]

AUTHORS

Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko

LICENSE

http://www.fsf.org/licensing/licenses/gpl.html

BUGS

Report bugs at http://nitrc.org/projects/cmtk/

ACKNOWLEDGMENTS

CMTK is developed with support from the NIAAA under Grant AA021697, National Consortium on Alcohol and Neurodevelopment in Adolescence (N-CANDA): Data Integration Component. From April 2009 through September 2011, CMTK development and maintenance was supported by the NIBIB under Grant EB008381.
Sep 11 2017 CMTK 3.3.1