1GDCM2VTK(1)                   DICOM Manipulation.                  GDCM2VTK(1)
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NAME

6       gdcm2vtk - Convert a file supported by VTK into DICOM.
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SYNOPSIS

9           gdcm2vtk [options] file-in file-out
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DESCRIPTION

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

16           file-in   input filename (DICOM or VTK supported)
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18           file-out  output filename (DICOM or VTK supported)
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OPTIONS

21   specific options
22                --force-rescale    force rescale.
23                --force-spacing    force spacing.
24                --palette-color    when supported generate a PALETTE COLOR file.
25                --argb             when supported generate a ARGB file.
26                --compress         when supported generate a compressed file.
27                --use-vtkdicom     Use vtkDICOMImageReader (instead of GDCM).
28                --modality         set Modality.
29                --lower-left       set lower left.
30                --shift            set shift.
31                --scale            set scale.
32                --compress         set compression (MetaIO).
33             -T --study-uid        Study UID.
34             -S --series-uid       Series UID.
35                --root-uid         Root UID.
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37   compression options
38             -J --jpeg             Compress image in jpeg.
39             -K --j2k              Compress image in j2k.
40             -L --jpegls           Compress image in jpeg-ls.
41             -R --rle              Compress image in rle (lossless only).
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43   general options
44             -h   --help
45                    print this help text and exit
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47             -v   --version
48                    print version information and exit
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50             -V   --verbose
51                    verbose mode (warning+error).
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53             -W   --warning
54                    warning mode, print warning information
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56             -E   --error
57                    error mode, print error information
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59             -D   --debug
60                    debug mode, print debug information
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62   environment variable
63             GDCM_ROOT_UID Root UID
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DESCRIPTION

66       Convert a file supported by VTK into DICOM.
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68       Typical usage is:
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70           $ gdcm2vtk inputfile output.dcm
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72       It uses the internal factory mechanism of VTK to recognize a file
73       (CanRead function). See VTK supported file here:
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75             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
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77       If your input file has 4 components, the 4th comp (alpha) will be
78       removed from the output file as DICOM does not support alpha component
79       anymore (see –argb option).
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81       Special care was taken for the following file format:
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83              1. DICOM: Direction Cosines and vtkMedicalImageInformation are passed to the output
84              2. BMP: The file can be saved with a Lookup Table (see --palette-color)
85              3. GE Signa: vtkMedicalImageProperties is passed to the output
86              4. MINC: Direction Cosines is passed to the output
87              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.
88
89   CONVERT MetaImage (mhd, mha)
90           $ gdcm2vtk inputfile output.mha
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92       This command will convert the input DICOM file: inputfile into a
93       MetaImage .mha file. Same goes for .mhd file.
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95   CONVERT MHA/MHD
96           $ gdcm2vtk inputfile output.mha
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98       or
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100           $ gdcm2vtk inputfile output.mhd
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102       This command will convert the input DICOM file: inputfile into a
103       MetaImageData .mha/.mhd file.
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105   CONVERT VTI
106           $ gdcm2vtk inputfile output.vti
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108       This command will convert the input DICOM file: inputfile into a XML
109       VTK ImageData .vti file.
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111   CONVERT VTK
112           $ gdcm2vtk inputfile output.vtk
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114       This command will convert the input DICOM file: inputfile into an old
115       VTK Structured PointSets .vtk file.
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CONVERT DICOM

118           $ gdcm2vtk input.dcm output.dcm
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120       vtkGDCMImageReader will be used to read in a DICOM file, not the
121       default vtkDICOMImageReader. See option –use-vtkdicom to use
122       vtkDICOMImageReader.
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ROUNDTRIP DICOM TO MHD TO DICOM

125           $ gdcm2vtk input_ybr.dcm output.mhd
126           $ gdcm2vtk --modality US --imageformat 7 output.mhd output.dcm
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128       The above refsection shows how to convert a DICOM using the Photometric
129       Interpretation of YBR_FULL (or even YBR_FULL_422 is lossy) into another
130       file format: MetaImage (mhd). Since this file format does not handle
131       color space, we have to explicitly set it using the –imageformat
132       command line option. The –modality command line option is required in
133       this case since the default Secondary Capture Image Storage Class
134       family does not allow for YBR Photometric Interpretation.
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GDCM2VTK NOTES

137       IMPORTANT NOTE: The internal VTK structured will be filled from the
138       input DICOM, and then pass to the output DICOM writer. Some information
139       might be lost during the conversion DICOM to VTK to DICOM. This option
140       is mostly used to test the vtkGDCMImageReader/vtkGDCMImageWriter
141       combination.
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143       IMPORTANT NOTE: When converting from a lossy format such as JPEG, the
144       information of lossiness is important. The output DICOM will contains
145       the required Lossy Image Compression attribute that indicates that
146       image was lossy-compressed somewhere along the pipeline. See also
147       gdcmimg (better handling of JPEG in general).
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149       IMPORTANT NOTE: When using –use-vtkdicom the output DICOM file will
150       always be written as MR Image Storage as this information is not
151       available from the reader itself. This allow setting the Image
152       Orientation (Patient) properly.
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SEE ALSO

155       gdcmdump(1), gdcmviewer(1), gdcmimg(1)
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AUTHOR

158       Mathieu Malaterre
159           Main developer
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162       Copyright © 2006, 2011 Mathieu Malaterre
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166GDCM 3.0.8                        12/05/2020                       GDCM2VTK(1)
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