NAME

       mincconcat - concatenate minc files along a specific dimension

SYNOPSIS

       mincconcat [<options>] <infile1>.mnc [<infile2>.mnc ...] <outfile>.mnc

DESCRIPTION

       Mincconcat  will  concatenate  a  number of minc files together, producing a single output
       file. The concatenation is done along a specified dimension, with the slices being  sorted
       into  ascending order.  The concatenation dimension can either be a dimension in the file,
       in which case coordinates for sorting are taken directly from the input files, or  it  can
       be a new dimension and the coordinates are specified with a command-line option.

OPTIONS

       Note  that  options  can be specified in abbreviated form (as long as they are unique) and
       can be given anywhere on the command line.

General options

       -2     Create a MINC 2.0 format output file.

       -clobber
              Overwrite an existing file.

       -noclobber
              Don't overwrite an existing file (default).

       -verbose
              Print out progress information for each chunk of data copied (default).

       -quiet Do not print out progress information.

       -max_chunk_size_in_kb size
              Specify the maximum size of the copy buffer (in kbytes). Default is 4096 kbytes.

       -filelist filename
              Specify a file containing a list of input file names. If "-" is  given,  then  file
              names  are  read from stdin. If this option is given, then there should be no input
              file names specified on the command  line.  Empty  lines  in  the  input  file  are
              ignored.

Output type options

       -filetype
              Don't do any type conversion (default).

       -byte  Write out 8-bit integer voxels.

       -short Write out 16-bit integer voxels.

       -int   Write out 32-bit integer voxels.

       -long  Superseded by -int.

       -float Write out single-precision floating point values.

       -double
              Write out double-precision floating point values.

       -signed
              Write  out  values  as  signed  integers  (default for short and long). Ignored for
              floating point types.

       -unsigned
              Write out values as unsigned integers (default  for  byte).  Ignored  for  floating
              point types.

       -valid_range min max
              Specifies  the  valid range of output voxel values in their integer representation.
              Default is the full range for the type  and  sign.   This  option  is  ignored  for
              floating point values.

Concatenation options

       -concat_dimension name
              Specifies the name of concatenation dimension. If the dimension exists in the input
              files, then coordinates are taken from those files. If not, then a new dimension is
              created  and the coordinate for each input file is taken from command-line options.
              The default is to use the slowest varying dimension of the first file.

       -start start
              Specifies the starting coordinate for the new dimension (default = 0.0).

       -step step
              Specifies the separation between voxels for the new dimension (default = 1.0).

       -width width
              Specifies the (constant) width of each sample along the new  dimension  (default  =
              none).

       -coordlist c1,c2,...
              Specifies a comma-separated list of coordinates along the new dimension.

       -widthlist w1,w2,...
              Specifies a comma-separated list of widths along the new dimension.

       -filestarts s1,s2,...
              Specifies  a  comma-separated list of offsets to the coordinate origins for each of
              the files listed on the command line. This option is useful for concatenating files
              along an existing dimension, for example for concatenating multiple functional runs
              along a time dimension.

       -check_dimensions
              Check that all input files have matching sampling in world dimensions (default).

       -nocheck_dimensions
              Ignore any differences between input files in world dimensions sampling.

       -ascending
              Sort coordinates in ascending order (default).

       -descending
              Sort coordinates in descending order.

       -interleaved
              Sort slabs by their dimension coordinate, interleaving if necessary (default).

       -sequential
              Don't sort slabs, just concatenate them together. WARNING - this will  destroy  the
              dimension  information  along  the concatenating dimension, replacing the start and
              step with zero and one.

Generic options for all commands:

       -help  Print summary of command-line options and exit.

       -version
              Print the program's version number and exit.

EXAMPLES

       To concatenate two volumes with dimensions  zspace,  yspace,  xspace,  having  interleaved
       slices along zspace, we can simply use

          mincconcat input1.mnc input2.mnc output.mnc

       If we have a bunch of compressed (yspace,  xspace) images that we wish to concatenate into
       an evenly spaced volume, then we can type

          mincconcat input1.mnc.gz input2.mnc.gz input3.mnc.gz \
             input4.mnc.gz output.mnc \
             -concat_dimension zspace -start -23 -step 2

AUTHOR

       Peter Neelin

COPYRIGHTS

       Copyright © 1995 by Peter Neelin

                                   $Date: 2005-07-15 17:38:08 $                     MINCCONCAT(1)