Linux Certif

Toute la documentation sur la certification Linux LPI

mincaverage

NAME

mincaverage - average minc files

SYNOPSIS

mincaverage [<options>] <in1>.mnc [<in2>.mnc...] <out>.mnc

DESCRIPTION

Mincaverage averages minc files together. A range of optional behaviour is permitted as well: pre-normalizing volumes, creating a standard deviation volume, averaging over a specified dimension of the input files.

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.

-debug

Print extra information (e.g. normalization factors).

-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.

-max_buffer_size_in_kb buffer-size

Specify the maximum size of the internal buffers (in kbytes). Default is 4096 kbytes.

Output type options

These options control the storage precision and size of individual voxel values in the output file.

-filetype

Don't do any type conversion (default).

-byte

Write out 8-bit integer values.

-short

Write out 16-bit integer values.

-int

Write out 32-bit integer values.

-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Superseded by -int.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.

-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. For it to have any effect, you must specify a type.

Averaging options

-normalize

Normalize volumes to their global average before averaging them (based on the mean of voxels with value greater than 2 percent of full range above the minimum).

-nonormalize

Do not normalize volumes (default).

-sdfile sdfile.mnc

Specify the name of an output standard deviation file, to be calculated in addition the mean that is normally calculated.

-copy_header

Copy all of the additional header information from the first input file (default for one input file).

-nocopy_header

Do not copy additional header information (default for many input files).

-avgdim dimname

Specify the name of a dimension over which we should be averaging (or calculating standard deviation). If normalization is done, it still only applies to separate files only - no normalization is done within a file.

-binarize

Binarize the input volumes before calculating the average. The binarization is done by specifying a range of values that contribute 1 to the average. Normalization of the input is not permitted when performing binarization.

-binrange min max

Specify the range of values for binarization.

-binvalue value

Specify a single legal value (integer) for binarization. The range is set to be +/- 0.5 around this value to achieve an effective rounding of input values.

-weights <w1,w2,...>

Specify a series of weights for averaging. The number of weighting values must match the number of input files and the values must be provided as a single argument with commas or spaces as separators. The sum of the weights must be non-zero. If weights are used with an averaging dimension, then only one input file can be specified.

-width_weighted

This option can only be used when averaging across a dimension (-avgdim option). It specifies that weighting should be done using the width variable that corresponds to the averaging dimension. For example, using -width_weighted with -avgdim time will use the time-width variable to weight the values.

Generic options for all commands:

-help

Print summary of command-line options and exit.

-version

Print the program's version number and exit.

AUTHOR

Peter Neelin

COPYRIGHTS

Copyright © 1995 by Peter Neelin