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, 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 						       reorient(1)