NAME¶
dcmdjpls - Decode JPEG-LS compressed DICOM file
SYNOPSIS¶
dcmdjpls [options] dcmfile-in dcmfile-out
DESCRIPTION¶
The
dcmdjpls utility reads a JPEG-ls compressed DICOM image
(
dcmfile-in), decompresses the JPEG-LS data (i. e. conversion to a
native DICOM transfer syntax) and writes the converted image to an output file
(
dcmfile-out).
PARAMETERS¶
dcmfile-in DICOM input filename to be converted
dcmfile-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
input file format:
+f --read-file
read file format or data set (default)
+fo --read-file-only
read file format only
-f --read-dataset
read data set without file meta information
# This option allows to decompress JPEG-LS compressed DICOM objects that have
# been stored as dataset without meta-header. Such a thing should not exist
# since the transfer syntax cannot be reliably determined without meta-header,
# but unfortunately it does.
processing options¶
planar configuration:
+pr --planar-restore
restore original planar configuration (default)
# If the compressed image is a color image, restore the planar
# configuration as described in the Planar Configuration attribute.
+pa --planar-auto
automatically determine planar configuration
from SOP class and color space
# If the compressed image is a color image, store in color-by-plane
# planar configuration if required by the SOP class and photometric
# interpretation. Hardcopy Color images are always stored color-by-
# plane, and the revised Ultrasound image objects are stored color-by-
# plane if the color model is YBR_FULL. Everything else is stored
# color-by-pixel.
+px --color-by-pixel
always store color-by-pixel
# If the compressed image is a color image, store in color-by-pixel
# planar configuration.
+pl --color-by-plane
always store color-by-plane
# If the compressed image is a color image, store in color-by-plane
# planar configuration.
SOP Instance UID:
+ud --uid-default
keep same SOP Instance UID (default)
# Never assigns a new SOP instance UID.
+ua --uid-always
always assign new UID
# Always assigns a new SOP instance UID.
other processing options:
+io --ignore-offsettable
ignore offset table when decompressing
output options¶
output file format:
+F --write-file
write file format (default)
-F --write-dataset
write data set without file meta information
output transfer syntax:
+te --write-xfer-little
write with explicit VR little endian (default)
+tb --write-xfer-big
write with explicit VR big endian TS
+ti --write-xfer-implicit
write with implicit VR little endian TS
post-1993 value representations:
+u --enable-new-vr
enable support for new VRs (UN/UT) (default)
-u --disable-new-vr
disable support for new VRs, convert to OB
group length encoding:
+g= --group-length-recalc
recalculate group lengths if present (default)
+g --group-length-create
always write with group length elements
-g --group-length-remove
always write without group length elements
length encoding in sequences and items:
+e --length-explicit
write with explicit lengths (default)
-e --length-undefined
write with undefined lengths
data set trailing padding (not with --write-dataset):
-p= --padding-retain
do not change padding (default if not --write-dataset)
-p --padding-off
no padding (implicit if --write-dataset)
+p --padding-create [f]ile-pad [i]tem-pad: integer
align file on multiple of f bytes
and items on multiple of i bytes
TRANSFER SYNTAXES¶
dcmdjpls supports the following transfer syntaxes for input
(
dcmfile-in):
LittleEndianImplicitTransferSyntax 1.2.840.10008.1.2
LittleEndianExplicitTransferSyntax 1.2.840.10008.1.2.1
DeflatedExplicitVRLittleEndianTransferSyntax 1.2.840.10008.1.2.1.99 (*)
BigEndianExplicitTransferSyntax 1.2.840.10008.1.2.2
JPEGLSLosslessTransferSyntax 1.2.840.10008.1.2.4.80
JPEGLSLossyTransferSyntax 1.2.840.10008.1.2.4.81
(*) if compiled with zlib support enabled
dcmdjpls supports the following transfer syntaxes for output
(
dcmfile-out):
LittleEndianImplicitTransferSyntax 1.2.840.10008.1.2
LittleEndianExplicitTransferSyntax 1.2.840.10008.1.2.1
BigEndianExplicitTransferSyntax 1.2.840.10008.1.2.2
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
dcmdjpls 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.
SEE ALSO¶
dcmcjpls(1)
COPYRIGHT¶
Copyright (C) 2009-2010 by OFFIS e.V., Escherweg 2, 26121 Oldenburg,
Germany.