NAME

       gdcm2vtk - Convert a file supported by VTK into DICOM.

SYNOPSIS

           gdcm2vtk [options] file-in file-out

DESCRIPTION

       The gdcm2vtk takes as input any file supported by VTK (including DICOM file) and will
       generate as output a DICOM file.

PARAMETERS

           file-in   input filename (DICOM or VTK supported)

           file-out  output filename (DICOM or VTK supported)

OPTIONS

   specific options
                --force-rescale    force rescale.
                --force-spacing    force spacing.
                --palette-color    when supported generate a PALETTE COLOR file.
                --argb             when supported generate a ARGB file.
                --compress         when supported generate a compressed file.
                --use-vtkdicom     Use vtkDICOMImageReader (instead of GDCM).
                --modality         set Modality.
                --lower-left       set lower left.
                --shift            set shift.
                --scale            set scale.
                --compress         set compression (MetaIO).
             -T --study-uid        Study UID.
             -S --series-uid       Series UID.
                --root-uid         Root UID.
                --imageformat      Image Format [1-8] (aka PhotometricInterpretation).
                --ipp-sort         When input is directory, sort instances using IOP/IPP.

   compression options
             -J --jpeg             Compress image in jpeg.
             -K --j2k              Compress image in j2k.
             -L --jpegls           Compress image in jpeg-ls.
             -R --rle              Compress image in rle (lossless only).

   general options
             -h   --help
                    print this help text and exit

             -v   --version
                    print version information and exit

             -V   --verbose
                    verbose mode (warning+error).

             -W   --warning
                    warning mode, print warning information

             -E   --error
                    error mode, print error information

             -D   --debug
                    debug mode, print debug information

   environment variable
             GDCM_ROOT_UID Root UID

DESCRIPTION

       Convert a file supported by VTK into DICOM.

       Typical usage is:

           $ gdcm2vtk inputfile output.dcm

       It uses the internal factory mechanism of VTK to recognize a file (CanRead function). See
       VTK supported file here:

             What image file formats can VTK read and write? http://www.vtk.org/Wiki/VTK_FAQ#What_image_file_formats_can_VTK_read_and_write.3F

       If your input file has 4 components, the 4th comp (alpha) will be removed from the output
       file as DICOM does not support alpha component anymore (see –argb option).

       Special care was taken for the following file format:

              1. DICOM: Direction Cosines and vtkMedicalImageInformation are passed to the output
              2. BMP: The file can be saved with a Lookup Table (see --palette-color)
              3. GE Signa: vtkMedicalImageProperties is passed to the output
              4. MINC: Direction Cosines is passed to the output
              5. TIFF: vtkTIFFReader is currently in bad shape in VTK (different behavior in VTK 5.2 and git/master). Only use it, if you know what you are doing.

   CONVERT MetaImage (mhd, mha)
           $ gdcm2vtk inputfile output.mha

       This command will convert the input DICOM file: inputfile into a MetaImage .mha file. Same
       goes for .mhd file.

   CONVERT MHA/MHD
           $ gdcm2vtk inputfile output.mha

       or

           $ gdcm2vtk inputfile output.mhd

       This command will convert the input DICOM file: inputfile into a MetaImageData .mha/.mhd
       file.

   CONVERT VTI
           $ gdcm2vtk inputfile output.vti

       This command will convert the input DICOM file: inputfile into a XML VTK ImageData .vti
       file.

   CONVERT VTK
           $ gdcm2vtk inputfile output.vtk

       This command will convert the input DICOM file: inputfile into an old VTK Structured
       PointSets .vtk file.

CONVERT DICOM

           $ gdcm2vtk input.dcm output.dcm

       vtkGDCMImageReader will be used to read in a DICOM file, not the default
       vtkDICOMImageReader. See option –use-vtkdicom to use vtkDICOMImageReader.

ROUNDTRIP DICOM TO MHD TO DICOM

           $ gdcm2vtk input_ybr.dcm output.mhd
           $ gdcm2vtk --modality US --imageformat 7 output.mhd output.dcm

       The above refsection shows how to convert a DICOM using the Photometric Interpretation of
       YBR_FULL (or even YBR_FULL_422 is lossy) into another file format: MetaImage (mhd). Since
       this file format does not handle color space, we have to explicitly set it using the
       –imageformat command line option. The –modality command line option is required in this
       case since the default Secondary Capture Image Storage Class family does not allow for YBR
       Photometric Interpretation.

GDCM2VTK NOTES

       IMPORTANT NOTE: The internal VTK structured will be filled from the input DICOM, and then
       pass to the output DICOM writer. Some information might be lost during the conversion
       DICOM to VTK to DICOM. This option is mostly used to test the
       vtkGDCMImageReader/vtkGDCMImageWriter combination.

       IMPORTANT NOTE: When converting from a lossy format such as JPEG, the information of
       lossiness is important. The output DICOM will contains the required Lossy Image
       Compression attribute that indicates that image was lossy-compressed somewhere along the
       pipeline. See also gdcmimg (better handling of JPEG in general).

       IMPORTANT NOTE: When using –use-vtkdicom the output DICOM file will always be written as
       MR Image Storage as this information is not available from the reader itself. This allow
       setting the Image Orientation (Patient) properly.

SEE ALSO

       gdcmdump(1), gdcmviewer(1), gdcmimg(1)

AUTHOR

       Mathieu Malaterre
           Main developer

COPYRIGHT

       Copyright © 2006, 2011 Mathieu Malaterre