MINCCONCAT(1)							 MINC User's Guide						     MINCCONCAT(1)

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       -long  Superseded by -int.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 (C) 1995 by Peter Neelin

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