.TH stream_pixels "1" "Jan 25 2019" "CMTK 3.3.1p1" "The Computational Morphometry Toolkit"
.SH NAME
stream_pixels \- Stream pixel data from one or more images to Standard Output.
.SH SYNOPSIS
\fBstream_pixels\fR ImagePaths 
.SH DESCRIPTION
This 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.
.SH OPTIONS
.SS Global Toolkit Options (these are shared by all CMTK tools)
.TP 5
\fB\-\-help\fR
Write list of basic command line options to standard output.
.TP 5
\fB\-\-help-all\fR
Write complete list of basic and advanced command line options to standard output.
.TP 5
\fB\-\-wiki\fR
Write list of command line options to standard output in MediaWiki markup.
.TP 5
\fB\-\-man\fR
Write man page source in 'nroff' markup to standard output.
.TP 5
\fB\-\-version\fR
Write toolkit version to standard output.
.TP 5
\fB\-\-echo\fR
Write the current command line to standard output.
.TP 5
\fB\-\-verbose-level\fR \fI<integer>\fR
Set verbosity level.
.TP 5
\fB\-\-verbose\fR, \fB\-v\fR
Increment verbosity level by 1 (deprecated; supported for backward compatibility).
.TP 5
\fB\-\-threads\fR \fI<integer>\fR
Set maximum number of parallel threads (for POSIX threads and OpenMP).
.SS Main Options
.TP 5
\fB\-\-reorient\fR \fI<string>\fR
Reorient all images to anatomy-based standard orientation, e.g., RAS or LPS for axial. Default: no reorientation.
.B [Default: NONE]
.TP 5
\fB\-\-change-endian\fR
Change endianness. Default: native endianness.
.TP 5
\fB\-\-convert\fR
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:
.RS 5
.TP 5
\fB\-\-char\fR
8 bits, signed integer
.TP 5
\fB\-\-byte\fR
8 bits, unsigned integer
.TP 5
\fB\-\-short\fR
16 bits, signed integer
.TP 5
\fB\-\-ushort\fR
16 bits, unsigned integer
.TP 5
\fB\-\-int\fR
32 bits, signed integer
.TP 5
\fB\-\-uint\fR
32 bits, unsigned integer
.TP 5
\fB\-\-float\fR
32-bits, single-precision floating point
.TP 5
\fB\-\-double\fR
64 bits, double-precision floating point
.RE
.SH AUTHORS
Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko
.SH LICENSE
http://www.fsf.org/licensing/licenses/gpl.html
.SH BUGS
Report bugs at http://nitrc.org/projects/cmtk/
.SH 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.