pxsearch - Search image neighborhoods for pixels.
This tool reads an image file, as well as a list of pixel
coordinates from standard input. For each pixel, a local neighbourhood in
the image is searched for the maximum value. The location of the maximum is
then written to standard output.
- --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).
- --input-coordinates
- Coordinate specification mode for program input. Supported values:
"absolute", "indexed", "relative",
"physical", where the default is "absolute", or use
one of the following:
- --absolute
- Use absolute volume coordinates. For each dimension, the valid range is
[0,FOV]. [This is the default]
- --indexed
- Use grid indexes to specify coordinates. For each dimension, the valid
value range is [0,Dims-1].
- --relative
- Use relative volume coordinates. For each dimension, the valid range is
[0,1].
- --physical
- Use physical volume coordinates. Each given location is transformed into
image coordinates via the inverse of the images's index-to-physical space
matrix.
- --output-coordinates
- Coordinate specification mode for program output. Supported values:
"absolute", "indexed", "relative",
"physical", where the default is "absolute", or use
one of the following:
- --absolute
- Use absolute volume coordinates. For each dimension, the valid range is
[0,FOV]. [This is the default]
- --indexed
- Use grid indexes to specify coordinates. For each dimension, the valid
value range is [0,Dims-1].
- --relative
- Use relative volume coordinates. For each dimension, the valid range is
[0,1].
- --physical
- Use physical volume coordinates. Each given location is transformed into
image coordinates via the inverse of the images's index-to-physical space
matrix.
- --radius
<string>
- Radius of the search region in pixels (specified either as triple
"rX,rY,rZ", or a single value, "rXYZ"). The region
searched is [2*rX+1,2*rY+1,2*rZ+1] pixels large, centered at the input
location (but cropped at the image boundary). [Default: 1 ]
- --no-reorient
- Disable image reorientation into RAS alignment.
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.