cmtk-mk_nifti_hdr (1)

mk_nifti_hdr [options] [output.nii]

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

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. Provided as 'DimsX,DimsY,DimsZ'

--voxel <string>, -V <string>

Set voxel size. Provided as 'PixX,PixY,PixZ' [in mm]

--offset <float>, -O <float>

Binary data file offset [Default: disabled]

--byte, -b

8 bits, unsigned (this is the default)

--char, -c

8 bits, signed

--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

--reset-coordinates

In an imported header, reset the image-to-physical coordinate mapping to an identity matrix.

--attached

Create attached header for use in single-file images. Image data must be concatenated directly onto the created header file.

--import <string>, -I <string>

Import data from given header file. [Default: NONE]

--description <string>

Set description string [max. 80 characters] [Default: NONE]

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

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

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

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.