[vtkusers] [Insight-users] Cropping Problem

Wed May 5 19:47:00 EDT 2010

Hello,

Sorry but, I wait since three weeks for an answer

________________________________
Von: Yusuf OEZBEK <nasil122002 at yahoo.de>
An: Luis Ibanez <luis.ibanez at kitware.com>; ITK Mailinglist <insight-users at itk.org>; VTK Mailinglist <vtkusers at vtk.org>
CC: nasil122002 at gmail.com
Gesendet: Freitag, den 23. April 2010, 23:57:34 Uhr
Betreff: Re: [Insight-users] Cropping Problem

Hello, 

Here are the outputs/results for volume rendering, marching cubes, watershed and region growing segmentation. After the segmentation (in itk) i have the .mhd files saved for both segmentations (watershed and region growing). After this I wanted to the results load into ParaView. But in both files are nothing to see and always get the errors
"ERROR: In .. \ .. \ .. \ src \ server \ Filters \ vtkTexturePainter.cxx, line 287 vtkTexturePainter (00000000082D23E0): Incorrect dimensionality. " and 
"ERROR: In .. \ .. \ .. \ src \ VTK \ IO \ vtkMetaImageReader.cxx, line 105 vtkMetaImageReader (00000000123D7000): Unknown data type: 11 "

Outputs of  "reader->GetOutput()->Print( std::cout );"

http://www.wopsys.com/Outputs/Output_MarchingCubes.txt
http://www.wopsys.com/Outputs/Output_VolumeRendering.txt

http://www.wopsys.com/Outputs/Output_Watershed.txt
http://www.wopsys.com/Outputs/Output_RegionGrowing.txt

and the .mhd Files

http://www.wopsys.com/Outputs/RegionGrowing.mhd
http://www.wopsys.com/Outputs/RegionGrowing.raw

http://www.wopsys.com/Outputs/Watershed.mhd
http://www.wopsys.com/Outputs/Watershed.raw

All as .zip

http://www.wopsys.com/Outputs.zip

Thank you.

________________________________
Von: Luis Ibanez <luis.ibanez at kitware.com>
An: Yusuf OEZBEK <nasil122002 at yahoo.de>
CC: ITK Mailinglist <insight-users at itk.org>; VTK Mailinglist <vtkusers at vtk.org>; nasil122002 at gmail.com
Gesendet: Sonntag, den 18. April 2010, 1:12:33 Uhr
Betreff: Re: [Insight-users] Cropping Problem

Hi Yusuf,

You should start by separating the segmentation
problem from the visualization problem.

Please do the following:

0) Just after you call:

   reader->SetFileNames( fileNames );
   reader->Update();

   add

   reader->GetOutput()->Print( std::cout );

   then

1) Run the ITK segmentation pipeline until you 
    get the segmented image, and save it as a
    MetaImage file (with extension .mhd)

2) Post the content of the resulting .mhd file 
    back to the list, as well as the print out of 
    the statement:

   reader->GetOutput()->Print( std::cout );

3) Use Paraview (www.paraview.org) to load the
    resulting image and extracting an iso-surface.
    Compare that iso-surface with the one that 
    you get by directly from the DICOM image.
    (and let us know what you find).

With the information from (2) we should be 
able to identify if any geometrical information
is missing from the ITK processing pipeline.

   Thanks

         Luis

------------------------------------------------------------------------

On Thu, Apr 15, 2010 at 5:54 PM, Yusuf OEZBEK <nasil122002 at yahoo.de> wrote:

>
>Hello,
>Can anyone help me please? I have a problem with to cut (cropping) a 3D
>object, which I produced by the segmentation-method “watershed and region growing”.
>In the beginning I read the DICOM images with itkImageSeriesReader, then I run watershed
>or region growing algorithm, in order to connect itk with vtk and a 3D object
>produce and for the displaying of segmentation, I use vtkContourFilter. After
>segmentation of cropping the images I use vtkBoxClipDataSet,
>vtkDataSetSurfaceFilter and vtkPolyDataMapper, but the result is a black
>screen.  When I read the images with
>vtkDICOMImageReader and then segmented with volume rendering or marching cubes,
>then it works completely well. The problem arises only for watershed and region
>growing Algorithm. Where is my mistake in the code, what am I doing wrong? 
>To understand my problem better, please see my screenshots on the
>following link.
>
>
>http://www.wopsys.com/bilder/segmentation.html
>
>
>
>Thank you.
>
>>
>
>
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