[Insight-users] 4D itkImage to vtkImageData

[Luis Ibanez]

Hi Antoine,

VTK doesn't support 4D images.

You may have to split it into a series of 3D images.

What you need then is the ImageReadSeriesWriter example.

Change the input image type to 4D and the output image
type to 3D.

The provide the output file pattern as a name with
extesion ".vtk".

You should end up with 60 .vtk files each one
containing a 3D image.


    Regards,


        Luis


-----------------------
Antoine DUCHAMPS wrote:
> Hi All,
> 
> I have a 4D DWI sequence 128 x 128 x 41 x 60 in size (xsize x ysize x
> zsize x number of gradient orientations). I need to read it and convert
> it to VTKImageData in order to estimate the tensors with slicer. I tried
> to use itkImageToVTKImageFilter.h as shown in the code below but the
> resulting vtkImageData contains only one scalar component (see the
> output of connector -> GetOutput() -> Print(std::cout); ), whereas I
> would have expected 60 (one for each gradient direction). Is this the
> expected behavior or I'm doing something wrong? How is coded the 4th
> dimension?
> 
> NOTE: The sequence I'm using for testing is in a single nii file, which
> is passed as argument in the command line.
> 
> Thanks! ,
> 
> Antoine
> 
> --
> 
> #include "itkOrientedImage.h"
> #include "itkImageFileReader.h"
> #include "itkImageFileReader.h"
> #include "itkImageToVTKImageFilter.h"
> 
> 
> int main( int argc, char ** argv )
> 
> {
>   typedef unsigned short      PixelType;
>   const   unsigned int        Dimension = 4;
> 
>   typedef itk::OrientedImage< PixelType, Dimension >   ImageType;
>   typedef itk::ImageFileReader< ImageType >    ReaderType;
>   typedef itk::ImageToVTKImageFilter< ImageType > ConnectorType;
>   
>   ReaderType::Pointer reader = ReaderType::New();
>   ConnectorType::Pointer connector = ConnectorType::New();
>     
>   reader->SetFileName(argv[1]);
>   reader->Update();
>   connector -> SetInput(reader->GetOutput());
>   connector -> Update();
>   connector -> GetOutput() -> Print(std::cout);
> 
>   return 0;
> }
> 
> 
> --
> 
> vtkImageData (0x1b49ac0)
>   Debug: Off
>   Modified Time: 216
>   Reference Count: 1
>   Registered Events: (none)
>   Source: (none)
>   Information: 0x1b49c30
>   Data Released: False
>   Global Release Data: Off
>   UpdateTime: 217
>   Release Data: Off
>   UpdateExtent: Not Initialized
>   UpdateExtent: 0, 127, 0, 127, 0, 40
>   Update Number Of Pieces: 1
>   Update Piece: 0
>   Update Ghost Level: 0
>   WholeExtent: 0, 127, 0, 127, 0, 40
>   ExtentTranslator: (0x1b43de0)
>   RequestExactExtent: Off
>    Field Data:
>     Debug: Off
>     Modified Time: 196
>     Reference Count: 1
>     Registered Events: (none)
>     Number Of Arrays: 0
>     Number Of Components: 0
>     Number Of Tuples: 0
>   Number Of Points: 671744
>   Number Of Cells: 645160
>   Cell Data:
>     Debug: Off
>     Modified Time: 203
>     Reference Count: 1
>     Registered Events: (none)
>     Number Of Arrays: 0
>     Number Of Components: 0
>     Number Of Tuples: 0
>     Copy Tuple Flags: ( 1 1 1 1 1 0 1 )
>     Interpolate Flags: ( 1 1 1 1 1 0 0 )
>     Pass Through Flags: ( 1 1 1 1 1 1 1 )
>     Scalars: (none)
>     Vectors: (none)
>     Normals: (none)
>     TCoords: (none)
>     Tensors: (none)
>     GlobalIds: (none)
>     PedigreeIds: (none)
>   Point Data:
>     Debug: Off
>     Modified Time: 215
>     Reference Count: 1
>     Registered Events: (none)
>     Number Of Arrays: 1
>     Array 0 name = NULL
>     Number Of Components: 1
>     Number Of Tuples: 671744
>     Copy Tuple Flags: ( 1 1 1 1 1 0 1 )
>     Interpolate Flags: ( 1 1 1 1 1 0 0 )
>     Pass Through Flags: ( 1 1 1 1 1 1 1 )
>     Scalars: 
>       Debug: Off
>       Modified Time: 212
>       Reference Count: 1
>       Registered Events: (none)
>       Name: (none)
>       Data type: unsigned short
>       Size: 671744
>       MaxId: 671743
>       NumberOfComponents: 1
>       Information: 0
>       Name: (none)
>       Number Of Components: 1
>       Number Of Tuples: 671744
>       Size: 671744
>       MaxId: 671743
>       LookupTable: (none)
>       Array: 0x7f6bebeee010
>     Vectors: (none)
>     Normals: (none)
>     TCoords: (none)
>     Tensors: (none)
>     GlobalIds: (none)
>     PedigreeIds: (none)
>   Bounds: 
>     Xmin,Xmax: (-50.1938, 197.853)
>     Ymin,Ymax: (121.044, 369.091)
>     Zmin,Zmax: (-100.059, 39.9414)
>   Compute Time: 0
>   ScalarType: 5
>   NumberOfScalarComponents: 1
>   Spacing: (1.95312, 1.95312, 3.5)
>   Origin: (-50.1938, 121.044, -100.059)
>   Dimensions: (128, 128, 41)
>   Increments: (0, 0, 0)
>   Extent: (0, 127, 0, 127, 0, 40)
> 
>  
> 
> 
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