This is the command dcmmklut that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
dcmmklut - Create DICOM look-up tables
SYNOPSIS
dcmmklut [options] dcmimg-out
DESCRIPTION
The dcmmklut utility allows one to create a variety of DICOM Modality, Presentation and
VOI look-up tables (LUT) and is intended for the creation of test images. The utility is
able to read an existing DICOM image file, create a look up table according to the command
line options, and write the new object back to file. It is also possible to create a new
object containing the specified LUT without reading an existing DICOM image file. This is
e.g. useful to simply store different look-up tables in a DICOM-like structure. As a
default the output file is encoded with the same transfer syntax used for the input file,
but the transfer syntax can also be specified as a command line option.
The LUT data can be derived from the shape of a gamma curve (default for the gamma factor
is 1) or imported from a file (currently the MAP format from Ulead's PhotoImpact and a
simple text format are supported). The input and output width of the LUT can also be
specified in the range allowed by the DICOM standard. The interpolation of the input range
is done by a polynomial curve fitting algorithm.
In addition to the DICOM output file the LUT data can also be exported to a tabbed text
file which allows the easy visualization of the curves with a common spread sheet
application (e.g. Microsoft Excel).
PARAMETERS
dcmimg-out DICOM output filename
OPTIONS
general options
-h --help
print this help text and exit
--version
print version information and exit
--arguments
print expanded command line arguments
-q --quiet
quiet mode, print no warnings and errors
-v --verbose
verbose mode, print processing details
-d --debug
debug mode, print debug information
-ll --log-level [l]evel: string constant
(fatal, error, warn, info, debug, trace)
use level l for the logger
-lc --log-config [f]ilename: string
use config file f for the logger
LUT creation options
LUT type:
+Tm --modality
create as Modality LUT
+Tp --presentation
create as Presentation LUT
+Tv --voi
create as VOI LUT (default)
LUT placement:
+Pa --add
add to existing transform
(default for and only with --voi)
+Pr --replace
replace existing transform
(default for --modality and --presentation)
LUT content:
+Cg --gamma [g]amma: float
use gamma value (default: 1.0)
+Cm --map-file [f]ilename: string
read input data from MAP file
+Ct --text-file [f]ilename: string
read input data from text file
LUT options:
+Og --inverse-gsdf
apply inverse GSDF (print presentation LUT in OD)
--min-density [v]alue: integer (0..65535, default: 20)
set min density to v (in hundreds of OD)
--max-density [v]alue: integer (0..65535, default: 300)
set max density to v (in hundreds of OD)
+Oi --illumination [v]alue: integer (0..65535, default: 2000)
set illumination to v (in cd/m^2)
+Or --reflection [v]alue: integer (0..65535, default: 10)
set reflected ambient light to v (in cd/m^2)
LUT structure:
-b --bits [n]umber: integer
create LUT with n bit values (8..16, default: 16)
-e --entries [n]umber: integer
create LUT with n entries (1..65536, default: 256)
-f --first-mapped [n]umber: integer
first input value mapped (-31768..65535, default: 0)
-r --random [n]umber: unsigned integer
perform n randomly selected permutations on the LUT
-rs --random-seed [n]umber: unsigned integer
initialize the random-number generator with n
(default: 0, for reproducible results)
-o --order [n]umber: integer
use polynomial curve fitting algorithm with order n
(0..99, default: 5)
-E --explanation [n]ame: string
LUT explanation (default: automatically created)
LUT data alignment:
-a --byte-align
create byte-aligned LUT
(default for and only with 8 bit values)
+a --word-align
create word-aligned LUT
(default for 9-16 bit values)
LUT data VR:
+Dw --data-ow
write LUT Data as OW (default)
+Du --data-us
write LUT Data as US
+Ds --data-ss
write LUT Data as SS (minimal support)
file options
+Fi --dicom-input [f]ilename: string
read dataset from DICOM file f
+Fo --text-output [f]ilename: string
write LUT data to tabbed text file f
NOTES
Please check the DICOM standard for further restrictions on the look-up table structure.
Especially the number of bits per table entry might be restricted in particular IODs.
LOGGING
The level of logging output of the various command line tools and underlying libraries can
be specified by the user. By default, only errors and warnings are written to the standard
error stream. Using option --verbose also informational messages like processing details
are reported. Option --debug can be used to get more details on the internal activity,
e.g. for debugging purposes. Other logging levels can be selected using option --log-
level. In --quiet mode only fatal errors are reported. In such very severe error events,
the application will usually terminate. For more details on the different logging levels,
see documentation of module 'oflog'.
In case the logging output should be written to file (optionally with logfile rotation),
to syslog (Unix) or the event log (Windows) option --log-config can be used. This
configuration file also allows for directing only certain messages to a particular output
stream and for filtering certain messages based on the module or application where they
are generated. An example configuration file is provided in <etcdir>/logger.cfg.
COMMAND LINE
All command line tools use the following notation for parameters: square brackets enclose
optional values (0-1), three trailing dots indicate that multiple values are allowed
(1-n), a combination of both means 0 to n values.
Command line options are distinguished from parameters by a leading '+' or '-' sign,
respectively. Usually, order and position of command line options are arbitrary (i.e. they
can appear anywhere). However, if options are mutually exclusive the rightmost appearance
is used. This behavior conforms to the standard evaluation rules of common Unix shells.
In addition, one or more command files can be specified using an '@' sign as a prefix to
the filename (e.g. @command.txt). Such a command argument is replaced by the content of
the corresponding text file (multiple whitespaces are treated as a single separator unless
they appear between two quotation marks) prior to any further evaluation. Please note that
a command file cannot contain another command file. This simple but effective approach
allows one to summarize common combinations of options/parameters and avoids longish and
confusing command lines (an example is provided in file <datadir>/dumppat.txt).
ENVIRONMENT
The dcmmklut utility will attempt to load DICOM data dictionaries specified in the
DCMDICTPATH environment variable. By default, i.e. if the DCMDICTPATH environment variable
is not set, the file <datadir>/dicom.dic will be loaded unless the dictionary is built
into the application (default for Windows).
The default behavior should be preferred and the DCMDICTPATH environment variable only
used when alternative data dictionaries are required. The DCMDICTPATH environment variable
has the same format as the Unix shell PATH variable in that a colon (':') separates
entries. On Windows systems, a semicolon (';') is used as a separator. The data dictionary
code will attempt to load each file specified in the DCMDICTPATH environment variable. It
is an error if no data dictionary can be loaded.
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