NAME

       pxsearch - Search image neighborhoods for pixels.

SYNOPSIS

       pxsearch InputImage

DESCRIPTION

       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.

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
       --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.

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.