[Insight-users] display analyze image em 2D and 3D

[Jihan Zoghbi]

Dear Luis,

 Thanks for your help, I have already succeed to read and visualize Analyze
Image. I'm facing a new problem now, when I'm trying to read and visualize
Dicom Image , I got a problem to view the slides in the correct order. I
used the following code:
/*******************************************/

char dir_name[]="/home/talita/Desktop/COMUNIX/Neck 1HEAD_NECK_PETCT/CT
HEAD-NK 5.0 B30s";
dicom_info = vtkImageData::New();
dicom_info = vtkITKMyUtilityLoadImage<unsigned short,1>(dir_name);
/*****************************************************/
void window1::addAxialSlice(int slice_number)
{
    int *extent;
    extent = dicom_info->GetWholeExtent();
    renderer->RemoveActor(axial);
    axialColors = vtkImageMapToColors::New();

SetInputConnection(image->GetOutputPort());
    axialColors->SetInput(dicom_info);
    axialColors->SetLookupTable(hueLut);

    axial = vtkImageActor::New();
    axial->SetInput(axialColors->GetOutput());
    axial->SetDisplayExtent(0,extent[1], 0,extent[3],
slice_number,slice_number);

   axial->SetPosition(0,0,0);

    renderer->AddActor(axial);
    renderer->ResetCameraClippingRange();
    renArea->queue_draw();
}
/******************************************************/

template <class IT,int choice>
vtkImageData* vtkITKMyUtilityLoadImage(char* fname)
{
    typedef itk::Image< IT,  3 >    ImageType;
    typedef itk::ImageToVTKImageFilter<ImageType> ImageToVTKImageFilterType;
    typedef itk::ImageFileReader< ImageType  >  ReaderType;
    typedef itk::ImageSeriesReader< ImageType > ReaderType2;

    typename ReaderType::Pointer reader = ReaderType::New();
    typename ReaderType2::Pointer reader2 = ReaderType2::New();

    typename ImageToVTKImageFilterType::Pointer
exporter=ImageToVTKImageFilterType::New();

    if (choice==0){
        reader->SetFileName(fname);

        try{
            reader->Update();
        }
        catch (itk::ExceptionObject & e)
        {
            std::cerr << "Failed to read " << fname << "\n" <<
e.GetDescription() << std::endl;
            return NULL;
        }
        exporter->SetInput(reader->GetOutput());
    }

    if (choice==1){


        itk::DICOMImageIO2::Pointer dicomIO = itk::DICOMImageIO2::New();

        // Get the DICOM filenames from the directory
        itk::DICOMSeriesFileNames::Pointer nameGenerator =
itk::DICOMSeriesFileNames::New();
        nameGenerator->SetDirectory(fname);


        try
        {
        typedef std::vector<std::string> seriesIdContainer;
        const seriesIdContainer & seriesUID =
nameGenerator->GetSeriesUIDs();

        seriesIdContainer::const_iterator seriesItr = seriesUID.begin();
        seriesIdContainer::const_iterator seriesEnd = seriesUID.end();

        std::cout << std::endl << "The directory: " << std::endl;
        std::cout << std::endl << fname << std::endl << std::endl;
        std::cout << "Contains the following DICOM Series: ";
        std::cout << std::endl << std::endl;

        while( seriesItr != seriesEnd )
        {
            std::cout << seriesItr->c_str() << std::endl;
            seriesItr++;
        }

        std::cout << std::endl << std::endl;
        std::cout << "Now reading series: " << std::endl << std::endl;

        typedef std::vector<std::string> fileNamesContainer;
        fileNamesContainer fileNames;

        std::cout << seriesUID.begin()->c_str() << std::endl;
        fileNames = nameGenerator->GetFileNames();
        std::cout << std::endl << std::endl;

        reader2->SetFileNames( fileNames );
        reader2->SetImageIO( dicomIO );


        try{
            reader2->Update();
        }
        catch (itk::ExceptionObject & e)
        {
            std::cerr << "Failed to read " << fname << "\n" <<
e.GetDescription() << std::endl;
            return NULL;
        }
        exporter->SetInput(reader2->GetOutput());
    }
    catch (itk::ExceptionObject &ex)
    {
        std::cout << ex;
        return NULL;
    }

    }

    exporter->Update();

    vtkImageData* output=vtkImageData::New();
    output->DeepCopy(exporter->GetOutput());

    return output;
}

P.S: This renderer is a Rendering Area of vtkmm.

Best Regards..
2008/9/27 Luis Ibanez <luis.ibanez at kitware.com>

>
> Hi Jihan,
>
> Please describe what is "different" about the image when you display it.
>
> Also, what are you using for displaying the image ?
>
> Have you used the ImageViewer to visualize the image ?
> You will find it in the InsightApplications module.
>
>
>  Regards,
>
>
>    Luis
>
>
> --------------------
> Jihan Zoghbi wrote:
>
>>
>> Hi all,
>> I have a set of Analyze Image. I used ITK to read the .hdr file and it got
>> all right. I export this image to vtk, I'm facing a great problem to display
>> a 2D Slice. I already checked the header data like: Spacing, Extent, Origin
>> ..and everything is ok! I 'm using unsigned short as a pixel type. I used
>> the vtkExtractVOI to extract a  2D slice,  but when I try to visualize it, i
>> got a total different image. Could anybody help me?
>>
>> Regards
>> --
>> Jihan Zoghbi
>>
>> --
>> Jihan Zoghbi
>>
>>
>> ------------------------------------------------------------------------
>>
>> _______________________________________________
>> Insight-users mailing list
>> Insight-users at itk.org
>> http://www.itk.org/mailman/listinfo/insight-users
>>
>


-- 
Jihan Zoghbi
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