NAME¶
dcmmklut - Create DICOM look-up tables
SYNOPSIS¶
dcmmklut [options] dcmimg-out
DESCRIPTION¶
The
dcmmklut utility allows 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 behaviour 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 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 behaviour 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.
FILES¶
<datadir>/philips.lut - sample LUT in text format
COPYRIGHT¶
Copyright (C) 1998-2010 by OFFIS e.V., Escherweg 2, 26121 Oldenburg,
Germany.