---
name: "cmtk-mk_nifti_hdr"
section: "1"
platform: "linux"
package: "cmtk"
version: "3.3.1p2+dfsg-3"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/cmtk-mk_nifti_hdr"
---

# cmtk-mk\_nifti\_hdr(1)

Make NIFTI header file

## NAME

mk\_nifti\_hdr - Make NIFTI header file

## SYNOPSIS

mk\_nifti\_hdr \[options\] \[output.nii\]

## DESCRIPTION

Make header file according to NIFTI file 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. 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 \[max. 80 characters\] **\[Default: NONE\]**

## 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.