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/*=========================================================================
*
* Copyright Insight Software Consortium
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0.txt
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*
*=========================================================================*/
// Software Guide : BeginLatex
//
// This example illustrates the use of the \doxygen{DeformableMesh3DFilter}.
// An initial mesh is created using the \doxygen{SphereMeshSource} filter.
//
// \index{Deformable Models}
// \index{DeformableMesh3DFilter}
// \index{SphereMeshSource}
//
// Software Guide : EndLatex
// Software Guide : BeginCodeSnippet
#include "itkDeformableMesh3DFilter.h"
#include "itkGradientRecursiveGaussianImageFilter.h"
#include "itkGradientMagnitudeRecursiveGaussianImageFilter.h"
#include "itkSphereMeshSource.h"
#include "itkImageFileReader.h"
int main(int argc, char * argv [] )
{
if( argc < 7 )
{
std::cerr << "Usage: DeformableModel2 inputImage sigma " << std::endl;
std::cerr << " numberOfIterations timeStep externalFoceScale stiffness" << std::endl;
return 1;
}
const char *inputFileName = argv[1];
const float sigma = atof( argv[2] ); // Suggested value = 5 * pixel spacing
const int numberOfIterations = atoi( argv[3] ); // Suggested value = 100
const float timeStep = atof( argv[4] ); // Suggested value = 0.1
const float externalForceScale = atof( argv[5] ); // Suggested value = 10 (linked to stiffness)
const float stiffness = atof( argv[6] ); // Suggested value = 0.1 (linked to force scale)
typedef double MeshPixelType;
typedef itk::Mesh< MeshPixelType > MeshType;
unsigned const int Dimension = 3;
typedef float PixelType;
typedef itk::Image<PixelType, Dimension> ImageType;
typedef itk::GradientRecursiveGaussianImageFilter<
ImageType
> GradientFilterType;
typedef itk::GradientMagnitudeRecursiveGaussianImageFilter<
ImageType,ImageType>
GradientMagnitudeFilterType;
typedef itk::DeformableMesh3DFilter<MeshType,MeshType> DeformableFilterType;
typedef itk::ImageFileReader< ImageType > ReaderType;
ReaderType::Pointer imageReader = ReaderType::New();
imageReader->SetFileName( inputFileName );
GradientMagnitudeFilterType::Pointer gradientMagnitudeFilter
= GradientMagnitudeFilterType::New();
try
{
imageReader->Update();
}
catch( itk::ExceptionObject & excep )
{
std::cerr << "Problem found while reading file " << inputFileName << std::endl;
std::cerr << "Exception Caught !" << std::endl;
std::cerr << excep << std::endl;
}
ImageType::ConstPointer inputImage = imageReader->GetOutput();
gradientMagnitudeFilter->SetInput( inputImage );
gradientMagnitudeFilter->SetSigma( sigma );
GradientFilterType::Pointer gradientMapFilter = GradientFilterType::New();
gradientMapFilter->SetInput( gradientMagnitudeFilter->GetOutput());
gradientMapFilter->SetSigma( sigma );
gradientMapFilter->Update();
DeformableFilterType::Pointer deformableModelFilter =
DeformableFilterType::New();
typedef itk::SphereMeshSource< MeshType > MeshSourceType;
MeshSourceType::Pointer meshSource = MeshSourceType::New();
// Set the initial sphere in the center of the image
//
const ImageType::SpacingType spacing = inputImage->GetSpacing();
ImageType::PointType origin = inputImage->GetOrigin();
ImageType::SizeType size = inputImage->GetBufferedRegion().GetSize();
MeshType::PointType center;
center[0] = origin[0] + spacing[0] * size[0] / 2.0;
center[1] = origin[1] + spacing[1] * size[1] / 2.0;
center[2] = origin[2] + spacing[2] * size[2] / 2.0;
meshSource->SetCenter( center );
MeshType::PointType radius;
radius[0] = spacing[0] * size[0] / 4.0;
radius[1] = spacing[1] * size[1] / 4.0;
radius[2] = spacing[2] * size[2] / 4.0;
meshSource->SetScale( radius );
meshSource->SetResolutionX( 50 );
meshSource->SetResolutionY( 50 );
meshSource->Update();
deformableModelFilter->SetInput( meshSource->GetOutput() );
deformableModelFilter->SetGradient( gradientMapFilter->GetOutput() );
typedef itk::CovariantVector<double, 2> StiffnessType;
StiffnessType stiffnessVector;
stiffnessVector[0] = stiffness;
stiffnessVector[1] = stiffness;
deformableModelFilter->SetTimeStep( timeStep );
deformableModelFilter->SetStiffness( stiffnessVector );
deformableModelFilter->SetStepThreshold( numberOfIterations );
deformableModelFilter->SetGradientMagnitude( externalForceScale );
try
{
deformableModelFilter->Update();
}
catch( itk::ExceptionObject & excep )
{
std::cerr << "Exception Caught !" << std::endl;
std::cerr << excep << std::endl;
}
return 0;
}
// Software Guide : EndCodeSnippet
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