SYNOPSIS

mia-2dseries-sectionmask -i <in-file> -o <out-file> [options]

DESCRIPTION

mia-2dseries-sectionmask Evaluate the masks for the sections of a segmented frame.

OPTIONS

-i --in-file=(input, required); string

input segmentation set

-o --out-file=(output, required); io

output image containing the mask For supported file types see PLUGINS:2dimage/io

-f --frame=0

Frame number for which to extract the maskFrame number for which to extract the mask

Help & Info

-V --verbose=warning

verbosity of output, print messages of given level and higher priorities. Supported priorities starting at lowest level are:

info - Low level messages

trace - Function call trace

fail - Report test failures

warning - Warnings

error - Report errors

debug - Debug output

message - Normal messages

fatal - Report only fatal errors

--copyright

print copyright information

-h --help

print this help

-? --usage

print a short help

--version

print the version number and exit

Processing

--threads=-1

Maxiumum number of threads to use for processing,This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation).Maxiumum number of threads to use for processing,This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation).

PLUGINS: 2dimage/io

bmp

BMP 2D-image input/output support

Recognized file extensions: .BMP, .bmp

 

Supported element types:

binary data, unsigned 8 bit, unsigned 16 bit

 

datapool

Virtual IO to and from the internal data pool

Recognized file extensions: .@

 

dicom

2D image io for DICOM

Recognized file extensions: .DCM, .dcm

 

Supported element types:

signed 16 bit, unsigned 16 bit

 

exr

a 2dimage io plugin for OpenEXR images

Recognized file extensions: .EXR, .exr

 

Supported element types:

unsigned 32 bit, floating point 32 bit

 

jpg

a 2dimage io plugin for jpeg gray scale images

Recognized file extensions: .JPEG, .JPG, .jpeg, .jpg

 

Supported element types:

unsigned 8 bit

 

png

a 2dimage io plugin for png images

Recognized file extensions: .PNG, .png

 

Supported element types:

binary data, unsigned 8 bit, unsigned 16 bit

 

raw

RAW 2D-image output support

Recognized file extensions: .RAW, .raw

 

Supported element types:

binary data, signed 8 bit, unsigned 8 bit, signed 16 bit, unsigned 16 bit, signed 32 bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit

 

tif

TIFF 2D-image input/output support

Recognized file extensions: .TIF, .TIFF, .tif, .tiff

 

Supported element types:

binary data, unsigned 8 bit, unsigned 16 bit, unsigned 32 bit

 

vista

a 2dimage io plugin for vista images

Recognized file extensions: .V, .VISTA, .v, .vista

 

Supported element types:

binary data, signed 8 bit, unsigned 8 bit, signed 16 bit, unsigned 16 bit, signed 32 bit, unsigned 32 bit, floating point 32 bit, floating point 64 bit

 

EXAMPLE

Evaluate the mask image from the segmentation of image 20 in segment.set and store it to mask20.png:

mia-2dseries-sectionmask -i segment.set -f 20 -o mask20.png

AUTHOR(s)

Gert Wollny

COPYRIGHT

This software is Copyright (c) 1999-2015 Leipzig, Germany and Madrid, Spain. It comes with ABSOLUTELY NO WARRANTY and you may redistribute it under the terms of the GNU GENERAL PUBLIC LICENSE Version 3 (or later). For more information run the program with the option '--copyright'.