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 di- mension 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 di- mension 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 (de- fault). -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 -long Superseded by -int.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 ex- ists 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 (de- fault = 1.0). -width width Specifies the (constant) width of each sample along the new dimen- sion (default = none). -coordlist c1,c2,... Specifies a comma-separated list of coordinates along the new dimen- sion. -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 ori- gins 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 di- mension. -check_dimensions Check that all input files have matching sampling in world dimen- sions (default). -nocheck_dimensions Ignore any differences between input files in world dimensions sam- pling. -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 di- mension, 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)
NAME | SYNOPSIS | DESCRIPTION | OPTIONS | General options | Output type options | Concatenation options | Generic options for all commands: | EXAMPLES | AUTHOR | COPYRIGHTS
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