mk_analyze_hdr(1)				       The Computational Morphometry Toolkit					 mk_analyze_hdr(1)

NAME

       mk_analyze_hdr - Make Analyze header file

SYNOPSIS

       mk_analyze_hdr [options] [output.nii]

DESCRIPTION

       Make header file according Analzye 7.5 format based on user-supplied parameters for geometry, data type, orientation, etc.

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
       --dims <string>, -D <string>
	    Set dimensions in voxels

       --voxel <string>, -V <string>
	    Set voxel size in [mm]

       --offset <float>, -O <float>
	    Binary data file offset [Default: disabled]

       --char, -c
	    8 bits, signed

       --byte, -b
	    8 bits, unsigned

       --short, -s
	    16 bits, signed

       --ushort, -u
	    16 bits, unsigned

       --int, -i
	    32 bits signed

       --float, -f
	    32 bits floating point

       --double, -d
	    64 bits floating point

       --big-endian, -B
	    Big endian data [This is the default]

       --little-endian, -L
	    Little endian data

       --axial
	    Set slice orientation to axial

       --axial-flip
	    Set slice orientation to reverse axial

       --sagittal
	    Set slice orientation to sagittal

       --sagittal-flip
	    Set slice orientation to reverse sagittal

       --coronal
	    Set slice orientation to corona;

       --coronal-flip
	    Set slice orientation to reverse coronal

       --legacy
	    Legacy mode; do not write 'SRI1' tag into header

       --SRI1
	    Force 'SRI1' tag even if not present in imported header

       --import <string>, -I <string>
	    Import data from given header file.  [Default: NONE]

       --description <string>
	    Set description string [max. 80 characters] [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 						 mk_analyze_hdr(1)