table of contents
| 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]
- --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
- --big-endian, -B
- Big endian data [This is the default]
- --little-endian, -L
- Little endian data
- --axial
- Set slice orientation to axial (this is the default)
- --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, Daniel B. Russakoff, and Yaroslav Halchenko
LICENSE¶
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.
| Jul 7 2024 | CMTK 3.3.1p2 |