Provided by: cmtk_3.3.1-1.2build1_amd64 bug


       dcm2image - DICOM to Image


       dcm2image SearchDirList


       Combine sets of DICOM slices to 3D image stacks


   Global Toolkit Options (these are shared by all CMTK tools)
            Write list of basic command line options to standard output.

            Write complete list of basic and advanced command line options to standard output.

            Write list of command line options to standard output in MediaWiki markup.

            Write man page source in 'nroff' markup to standard output.

            Write toolkit version to standard output.

            Write the current command line to standard output.

       --verbose-level <integer>
            Set verbosity level.

       --verbose, -v
            Increment verbosity level by 1 (deprecated; supported for backward compatibility).

       --threads <integer>
            Set maximum number of parallel threads (for POSIX threads and OpenMP).

   Main Options
            Disable progress reporting.

   Input Options
       --recurse, -r
            Recurse into directories

   Output Options
       --out-pattern <string>, -O <string>
            Output  image path pattern. Use the following substitutions: printf-style %d variante
            (image number); %n (image number with automatic number of digits); %N (like  %n,  but
            with  a  hyphen  '-'  before  number  if  there  is  more  than one image); %D (DICOM
            SeriesDescription); %R (DICOM RepetitionTime - MRI only); %E (DICOM  EchoTime  -  MRI
            only);   %T   (RawDataType  -  vendor-specific,  currently  GE  MRI  only)  [Default:
            image%n.nii ]

       --xml, -x
            Write XML sidecar file for each created image.

            Include potentially protected identifying  information  (e.g.,  UIDs,  device  serial
            numbers, dates) in the created XML sidecar files.

            Embed  DICOM  information into output images as 'description' (if supported by output
            file    format).     Supported    values:     "StudyID_StudyDate",     "PatientName",
            "SeriesDescription",  "None",  where  the  default  is  "None",  or  use  one  of the

                 StudyID,  tag  (0020,0010),  then  underscore,  followed   by   StudyDate,   tag
                 (0008,0020).  Date  is  appended  because  StudyID  is four digits only and will
                 repeat sooner or later.

                 Patient name, tag (0010,0010)

                 Series description, tag (0008,103e)

                 Embed no information - leave 'description' field empty.  [This is the default]

   Filtering Options
       --filter <string>
            Filter DICOM files and include only those matching the  given  pattern  of  the  form
            'TagName=text', such that the value of the DICOM tag with the given name contains the
            given text. If multiple filter patterns are provided via repeated use of this option,
            only files that match ALL patterns are included.

       --exclude <string>
            Exclude  all  DICOM files matching the given pattern of the form 'TagName=text', such
            that the value of the DICOM tag with the given  name  contains  the  given  text.  If
            multiple  exclusion  patterns  are provided, all files are excluded that match ANY of
            the patterns.

   Sorting Options
            Do NOT sort files by file name (sorting determines image stack order  when  resolving
            spatial collisions)

            Sort  files  lexicographically  by file name. Use this when instance numbers are non-

            Sort files by image instance number. Use this when file names are different  lengths,
            etc.  [This is the default]

   Stacking Options
            Also  write  output images for single-slice DICOM files that could not be assigned to
            any 3D stacks. By default, these are skipped.

            Ignore 'AcquisitionNumber' tag for image grouping, i.e., do not separate stacks based
            on this tag.

            Disable checking of image orientations (to avoid rounding issues)

       --tolerance <double>
            Tolerance  for  floating-point  comparisons  (must  be  >= 0; 0 = exact matches only;
            default: 1e-5). If one or more volumes cannot be stacked because of non-uniform slice
            spacing  that  exceeds  this  threshold,  dcm2image  will  return  an exit code of 3.
            [Default: 1e-05]


       Torsten Rohlfing, with contributions from Michael  P.  Hasak,  Greg  Jefferis,  Calvin  R.
       Maurer, Daniel B. Russakoff, and Yaroslav Halchenko



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       CMTK is developed with support from the NIAAA under Grant AA021697, National Consortium on
       Alcohol and Neurodevelopment in Adolescence (N-CANDA): Data  Integration  Component.  From
       April  2009  through September 2011, CMTK development and maintenance was supported by the
       NIBIB under Grant EB008381.