[ITK-users] [ITK] error executing in median filter for nifty(nii) file

[Matt McCormick]

Also, for DICOM images, specification of which series of slices is
required to read into the 3D image.  See [1].

Hope this helps,
Matt

[1] http://www.itk.org/Doxygen/html/IO_2DicomSeriesReadImageWrite2_8cxx-example.html


On Tue, Apr 22, 2014 at 7:51 AM, Bill Lorensen <bill.lorensen at gmail.com> wrote:
> Are you building your ITK and Median program in Release mode? If it is
> build in Debug mode, the times can be 10-100 times slower.
>
>
> On Tue, Apr 22, 2014 at 6:54 AM, neela <avcneela at gmail.com> wrote:
>> hi
>>
>> i am new to itk programming.  I want to just simple filter(say median
>> filter) for nii file.  I changed the MedianImageFilter.cxx program available
>> with ITK as follows: (change size from 2 to 3) and include radius along z
>> direction.
>>
>> #include "itkImageFileReader.h"
>> #include "itkImageFileWriter.h"
>>
>> #include "itkMedianImageFilter.h"
>>
>> int main( int argc, char * argv[] )
>> {
>>   if( argc < 3 )
>>     {
>>     std::cerr << "Usage: " << std::endl;
>>     std::cerr << argv[0] << "  inputImageFile   outputImageFile" <<
>> std::endl;
>>     return EXIT_FAILURE;
>>     }
>>
>>
>>   typedef   unsigned char  InputPixelType;
>>   typedef   unsigned  char  OutputPixelType;
>>
>>   typedef itk::Image< InputPixelType,  3 >   InputImageType;
>>   typedef itk::Image< OutputPixelType, 3 >   OutputImageType;
>>
>>   typedef itk::ImageFileReader< InputImageType  >  ReaderType;
>>   typedef itk::ImageFileWriter< OutputImageType >  WriterType;
>>
>>   ReaderType::Pointer reader = ReaderType::New();
>>   WriterType::Pointer writer = WriterType::New();
>>
>>   reader->SetFileName( argv[1] );
>>   writer->SetFileName( argv[2] );
>>
>>   typedef itk::MedianImageFilter<
>>                InputImageType, OutputImageType >  FilterType;
>>
>>   FilterType::Pointer filter = FilterType::New();
>>   InputImageType::SizeType indexRadius;
>>
>>   indexRadius[0] = 1; // radius along x
>>   indexRadius[1] = 1; // radius along y
>> indexRadius[2] = 1; // radius along z
>>
>>   filter->SetRadius( indexRadius );
>>
>>   filter->SetInput( reader->GetOutput() );
>>   writer->SetInput( filter->GetOutput() );
>>   writer->Update();
>>
>>
>>
>>   return EXIT_SUCCESS;
>> }
>>
>> But it works well for JPG images, when i tried for DCM images i got only
>> partial output (only one slice) where as for nii image system hangs.
>> Anybody please help me.
>>
>> thanks
>>
>>
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>
>
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