DESCRIPTIONThis tool reads one or more images and writes all their pixels to standard output in binary form. Optionally, each image can be reoriented to a specified anatomical orientation and/or converted to a different data type. This is useful for piping image data through a pipeline, e.g., the Camino DTI toolkit.
Global Toolkit Options (these are shared by all CMTK tools)
- Write list of basic command line options to standard output.
- Write complete list of basic and advanced command line options to standard output.
- Write list of command line options to standard output in MediaWiki markup.
- Write man page source in 'nroff' markup to standard output.
- Write toolkit version to standard output.
- 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).
- --reorient <string>
- Reorient all images to anatomy-based standard orientation, e.g., RAS or LPS for axial. Default: no reorientation. [Default: NONE]
- Change endianness. Default: native endianness.
Convert data to new scalar type. Default: no conversion.
Supported values: "char", "byte", "short", "ushort", "int", "uint", "float", "double", or use one of the following:
- 8 bits, signed integer
- 8 bits, unsigned integer
- 16 bits, signed integer
- 16 bits, unsigned integer
- 32 bits, signed integer
- 32 bits, unsigned integer
- 32-bits, single-precision floating point
- 64 bits, double-precision floating point
AUTHORSTorsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko
BUGSReport bugs at http://nitrc.org/projects/cmtk/
ACKNOWLEDGMENTSCMTK 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.