Provided by: cmtk_3.3.1p2+dfsg-2build1_amd64 bug


       groupwise_init - Affine initialization for groupwise registration


       groupwise_init [options] image0 [image1 ...]


       Compute  initial  affine  alignment  for  a group of input images, which can be used as an
       input for groupwise registration


   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).

   Main Options
       --template <string>, -t <string>
            Input filename for pre-defined template image.  [Default: NONE]

       --output-root <string>, -O <string>
            Root directory for all output files.  [Default: NONE]

       --output <string>, -o <string>
            Output filename for groupwise registration archive.  [Default: groupwise.xforms ]

       --output-average <string>
            Output filename for registered average image.  [Default: average.nii ]

            Use cubic (rather than linear) interpolation for average image.

            Do not write average image.

            Initially align centers of mass rather than centers of bounding boxes.

            Initialize scale factors using first-order moments

            Center aligned images in template grid field of view.

            Scalar data type for the output average image.   Supported  values:  "char",  "byte",
            "short", "ushort", "int", "uint", "float", "double", where the default is "float", or
            use one of the following:

                 8 bits, signed

                 8 bits, unsigned

                 16 bits, signed

                 16 bits, unsigned

                 32 bits signed

                 32 bits unsigned

                 32 bits floating point [This is the default]

                 64 bits floating point


       Torsten Rohlfing, with contributions from Michael  P.  Hasak,  Greg  Jefferis,  Calvin  R.
       Maurer, Daniel B. Russakoff, and Yaroslav Halchenko



       Report bugs at


       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.