ITK/Examples/WishList/IO/itkVtkImageConvertDICOM

itkVtkImageConvertDICOM.cxx

#include <itkRandomImageSource.h>
#include "itkImageToVTKImageFilter.h"
 
#include "vtkVersion.h"
#include <vtkSmartPointer.h>
#include <vtkGPUVolumeRayCastMapper.h>
#include <vtkColorTransferFunction.h>
#include <vtkPiecewiseFunction.h>
#include <vtkRenderer.h>
#include <vtkRenderWindow.h>
#include <vtkRenderWindowInteractor.h>
#include <vtkVolumeProperty.h>
#include <vtkMatrix4x4.h>
#include <vtkAxesActor.h>
 
typedef itk::Image<unsigned char, 3> VisualizingImageType;
 
VisualizingImageType::Pointer createImage()
{
    itk::Size<3> size;
    size[0]=512;
    size[1]=512;
    size[2]=16;
 
    itk::RandomImageSource<VisualizingImageType>::Pointer randomImageSource =
        itk::RandomImageSource<VisualizingImageType>::New();
    randomImageSource->SetNumberOfThreads(1); // to produce non-random results
    randomImageSource->SetSize(size);
    randomImageSource->Update();
 
    VisualizingImageType::Pointer image=randomImageSource->GetOutput();
    double t[3]={0, -200, 150};
    image->SetOrigin(t);
    t[0]=0.68;
    t[1]=0.68;
    t[2]=4.4;
    image->SetSpacing(t);
 
    VisualizingImageType::DirectionType m;
    m(0,0)=0;
    m(0,1)=1;
    m(0,2)=0;
    m(1,0)=0.707;
    m(1,1)=0;
    m(1,2)=-0.707;
    m(2,0)=-0.707;
    m(2,1)=0;
    m(2,2)=-0.707;
    m=m.GetTranspose();
    image->SetDirection(m);
    return image;
}
 
int main(int argc, char *argv[])
{
  VisualizingImageType::Pointer image=createImage();
 
  vtkSmartPointer<vtkRenderWindow> renWin = vtkSmartPointer<vtkRenderWindow>::New();
  vtkSmartPointer<vtkRenderer> ren1 = vtkSmartPointer<vtkRenderer>::New();
  ren1->SetBackground(0.5f,0.5f,1.0f);
 
  renWin->AddRenderer(ren1);
  renWin->SetSize(1280,1024);
  vtkSmartPointer<vtkRenderWindowInteractor> iren =
      vtkSmartPointer<vtkRenderWindowInteractor>::New();
  iren->SetRenderWindow(renWin);
  renWin->Render(); // make sure we have an OpenGL context.
 
  typedef itk::ImageToVTKImageFilter<VisualizingImageType> itkVtkConverter;
  itkVtkConverter::Pointer conv=itkVtkConverter::New();
  conv->SetInput(image);
 
  vtkSmartPointer<vtkGPUVolumeRayCastMapper> volumeMapper =
      vtkSmartPointer<vtkGPUVolumeRayCastMapper>::New();
#if VTK_MAJOR_VERSION <= 5
  volumeMapper->SetInput(conv->GetOutput());
#else
  conv->Update();
  volumeMapper->SetInputData(conv->GetOutput());
#endif
 
  vtkSmartPointer<vtkVolumeProperty> volumeProperty =
  vtkSmartPointer<vtkVolumeProperty>::New();
 
  vtkSmartPointer<vtkPiecewiseFunction> compositeOpacity =
  vtkSmartPointer<vtkPiecewiseFunction>::New();
  compositeOpacity->AddPoint(0.0,0.1);
  compositeOpacity->AddPoint(80.0,0.2);
  compositeOpacity->AddPoint(255.0,0.1);
  volumeProperty->SetScalarOpacity(compositeOpacity);
 
  vtkSmartPointer<vtkColorTransferFunction> color =
  vtkSmartPointer<vtkColorTransferFunction>::New();
  color->AddRGBPoint(0.0  ,0.0,0.0,1.0);
  color->AddRGBPoint(40.0  ,1.0,0.0,0.0);
  color->AddRGBPoint(255.0,1.0,1.0,1.0);
  volumeProperty->SetColor(color);
 
  vtkSmartPointer<vtkVolume> volume =
  vtkSmartPointer<vtkVolume>::New();
  volume->SetMapper(volumeMapper);
  volume->SetProperty(volumeProperty);
 
  // Here we take care of position and orientation
  // so that volume is in DICOM patient physical space
  VisualizingImageType::DirectionType d=image->GetDirection();
  vtkMatrix4x4 *mat=vtkMatrix4x4::New(); //start with identity matrix
  for (int i=0; i<3; i++)
      for (int k=0; k<3; k++)
          mat->SetElement(i,k, d(i,k));
 
  // Counteract the built-in translation by origin
  VisualizingImageType::PointType origin=image->GetOrigin();
  volume->SetPosition(-origin[0], -origin[1], -origin[2]);
 
  // Add translation to the user matrix
  for (int i=0; i<3; i++)
    {
    mat->SetElement(i,3, origin[i]);
    }
  volume->SetUserMatrix(mat);
 
  // Add coordinate system axes, so we have a reference for position and orientation
  vtkSmartPointer<vtkAxesActor> axes = vtkSmartPointer<vtkAxesActor>::New();
  axes->SetTotalLength(250,250,250);
  axes->SetShaftTypeToCylinder();
  axes->SetCylinderRadius(0.01);
  ren1->AddActor(axes);
 
  ren1->AddVolume( volume );
  ren1->ResetCamera();
 
  renWin->Render();
  renWin->Render();
  renWin->Render();
 
  iren->Start();
 
  return EXIT_SUCCESS;
}

CMakeLists.txt

cmake_minimum_required(VERSION 2.8)
 
project(itkVtkImageConvertDICOM)
 
find_package(ITK REQUIRED)
include(${ITK_USE_FILE})
if (ITKVtkGlue_LOADED)
  find_package(VTK REQUIRED)
  include(${VTK_USE_FILE})
else()
  find_package(ItkVtkGlue REQUIRED)
  include(${ItkVtkGlue_USE_FILE})
  set(Glue ItkVtkGlue)
endif()
 
add_executable(itkVtkImageConvertDICOM MACOSX_BUNDLE itkVtkImageConvertDICOM.cxx)
target_link_libraries(itkVtkImageConvertDICOM
  ${Glue}  ${VTK_LIBRARIES} ${ITK_LIBRARIES})

Download and Build itkVtkImageConvertDICOM

Click here to download itkVtkImageConvertDICOM. and its CMakeLists.txt file. Once the tarball itkVtkImageConvertDICOM.tar has been downloaded and extracted,

cd itkVtkImageConvertDICOM/build

If ITK is installed:

cmake ..

If ITK is not installed but compiled on your system, you will need to specify the path to your ITK build:

cmake -DITK_DIR:PATH=/home/me/itk_build ..

Build the project,

make

and run it:

./itkVtkImageConvertDICOM

WINDOWS USERS PLEASE NOTE: Be sure to add the VTK and ITK bin directories to your path. This will resolve the VTK and ITK dll's at run time.

Building All of the Examples

Many of the examples in the ITK Wiki Examples Collection require VTK. You can build all of the the examples by following these instructions. If you are a new VTK user, you may want to try the Superbuild which will build a proper ITK and VTK.

ItkVtkGlue

ITK >= 4

For examples that use QuickView (which depends on VTK), you must have built ITK with Module_ITKVtkGlue=ON.

ITK < 4

Some of the ITK Examples require VTK to display the images. If you download the entire ITK Wiki Examples Collection, the ItkVtkGlue directory will be included and configured. If you wish to just build a few examples, then you will need to download ItkVtkGlue and build it. When you run cmake it will ask you to specify the location of the ItkVtkGlue binary directory.

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