[Insight-users] problem in using itkLabelOverlayImageFilter in 3D

[robert tamburo]

It appears the Analyze file format does not handle RGB images well (should
an exception be thrown or concept checking catch this?). If you output the
image as a meta or raw image (use .mhd or .raw file name extensions),
results should be as expected.

On Thu, Jun 30, 2011 at 9:48 AM, robert tamburo <robert.tamburo at gmail.com>wrote:

> Can you send me Region.hdr and Result.hdr?
>
>
> On Thu, Jun 30, 2011 at 9:46 AM, john smith <mkitkinsightuser at gmail.com>wrote:
>
>> I have made this change in my previous code and now I do not get any
>> errors. But when I run the algorithm I get very strange results. I get a
>> volume with confused the red and blue colors and not the blue contour of the
>> label image added on the initial grayscale 3D image. I hope someone could
>> help as I cannot understand the reason why I am getting these results.
>>
>>
>> Thanks in advance
>>
>> 2011/6/30 john smith <mkitkinsightuser at gmail.com>
>>
>>> I have made this change in my previous code and now I do not get any
>>> errors. But when I run the algorithm I get very strange results. I send a
>>> docx file including the two inputs and the output of
>>> itkLabelOverlayImageFilter. I hope someone to help me as I cannot understand
>>> the reason why I am getting these results.
>>>
>>> Thanks in advance
>>>
>>> 2011/6/30 john smith <mkitkinsightuser at gmail.com>
>>>
>>>> I have made this change in my previous code and now I do not get any
>>>> errors. But when I run the algorithm I get very strange results. I send a
>>>> docx file including the two inputs and the output of
>>>> itkLabelOverlayImageFilter. I hope someone to help me as I cannot understand
>>>> the reason why I am getting these results.
>>>>
>>>> Thanks in advance
>>>>
>>>> 2011/6/30 john smith <mkitkinsightuser at gmail.com>
>>>>
>>>>> I have made this change in my previous code and now I do not get any
>>>>> errors. But when I run the algorithm I get very strange results. I send a
>>>>> docx file including the two inputs and the output of
>>>>> itkLabelOverlayImageFilter. I hope someone to help me as I cannot understand
>>>>> the reason why I am getting these results.
>>>>>
>>>>> Thanks in advance
>>>>>
>>>>>
>>>>>
>>>>> 2011/6/30 john smith <mkitkinsightuser at gmail.com>
>>>>>
>>>>>> You have right. I will post the solution for 2D immediatly.
>>>>>>
>>>>>> Thanks for your response
>>>>>>
>>>>>>
>>>>>> 2011/6/30 robert tamburo <robert.tamburo at gmail.com>
>>>>>>
>>>>>>> Your typedef for RGBImageType does not have a template parameter for
>>>>>>> dimension.
>>>>>>>
>>>>>>> Also, it'd be nice if you posted your solution to your previous error
>>>>>>> for the benefit of other ITK users that may encounter the same problem.
>>>>>>>
>>>>>>> On Thu, Jun 30, 2011 at 8:45 AM, john smith <
>>>>>>> mkitkinsightuser at gmail.com> wrote:
>>>>>>>
>>>>>>>> Hello to all,
>>>>>>>>
>>>>>>>> I had used the itkLabelOverlayImageFilter  in 2D and I didn;t have
>>>>>>>> any problem. No I am trying to use tis filter in 3D. I have written exactly
>>>>>>>> the same code but for 3D, and I get this error which I don't know what
>>>>>>>> exactly means.
>>>>>>>>
>>>>>>>> the error is the following:
>>>>>>>> error C2440: 'initializing' : cannot convert from
>>>>>>>> 'itk::Concept::Detail::UniqueType_unsigned_int<__formal>' to
>>>>>>>> 'itk::Concept::Detail::UniqueType_unsigned_int<__formal>'
>>>>>>>>
>>>>>>>> I hope someone could help me.
>>>>>>>> Thanks in advance
>>>>>>>>
>>>>>>>> ///////////// code///////////
>>>>>>>>  typedef itk::Image<unsigned char, 3>  ImageType;
>>>>>>>>    ImageType::Pointer image1 = ImageType::New();
>>>>>>>>    ImageType::Pointer image_label = ImageType::New();
>>>>>>>>
>>>>>>>>    typedef   unsigned char           InternalPixelType_add;
>>>>>>>>    const     unsigned int    Dimension = 3;
>>>>>>>>    typedef itk::Image< InternalPixelType_add, Dimension >
>>>>>>>> InternalImageType_add;
>>>>>>>>    typedef  itk::ImageFileReader< InternalImageType_add >
>>>>>>>> ReaderType_add;
>>>>>>>>
>>>>>>>>     ReaderType_add::Pointer reader1 = ReaderType_add::New();
>>>>>>>>     reader1->SetFileName( fileName.toStdString()  );
>>>>>>>>     reader1->Update();
>>>>>>>>     image1 = reader1->GetOutput();
>>>>>>>>
>>>>>>>>     ReaderType_add::Pointer reader2 = ReaderType_add::New();
>>>>>>>>     reader2->SetFileName( "result.hdr"  );
>>>>>>>>     reader2->Update();
>>>>>>>>     image_label = reader2->GetOutput();
>>>>>>>>
>>>>>>>>
>>>>>>>>   typedef itk::RGBPixel<unsigned char> RGBPixelType;
>>>>>>>>   typedef itk::Image<RGBPixelType> RGBImageType;
>>>>>>>>
>>>>>>>>   typedef itk::LabelOverlayImageFilter<ImageType, ImageType,
>>>>>>>> RGBImageType>
>>>>>>>>                                        LabelOverlayImageFilterType;
>>>>>>>>   LabelOverlayImageFilterType::Pointer labelOverlayImageFilter =
>>>>>>>> LabelOverlayImageFilterType::New();
>>>>>>>>   labelOverlayImageFilter->SetInput(image1);
>>>>>>>>   labelOverlayImageFilter->SetLabelImage(image_label);
>>>>>>>>  // labelOverlayImageFilter->SetOpacity(.5);
>>>>>>>>   labelOverlayImageFilter->SetOpacity(1.0);
>>>>>>>>   labelOverlayImageFilter->ResetColors(); // reset color map
>>>>>>>>   labelOverlayImageFilter->AddColor(0, 0, 255); // fill color map
>>>>>>>> with blue
>>>>>>>>   labelOverlayImageFilter->SetBackgroundValue(0); // don't overlay
>>>>>>>> the background, i.e., label 0
>>>>>>>>   labelOverlayImageFilter->Update();
>>>>>>>>
>>>>>>>>   typedef  itk::ImageFileWriter< RGBImageType  > WriterType;
>>>>>>>>   WriterType::Pointer writer = WriterType::New();
>>>>>>>>   writer->SetFileName("output.hdr");
>>>>>>>>   writer->SetInput(labelOverlayImageFilter->GetOutput());
>>>>>>>>   writer->Update();
>>>>>>>>
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>>>>>>>>
>>>>>>>
>>>>>>
>>>>>
>>>>
>>>
>>
>
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