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itkFEMImageMetricLoad.h

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00001 /*=========================================================================
00002 
00003   Program:   Insight Segmentation & Registration Toolkit
00004   Module:    $RCSfile: itkFEMImageMetricLoad.h,v $
00005   Language:  C++
00006   Date:      $Date: 2009-01-29 21:28:16 $
00007   Version:   $Revision: 1.25 $
00008 
00009   Copyright (c) Insight Software Consortium. All rights reserved.
00010   See ITKCopyright.txt or http://www.itk.org/HTML/Copyright.htm for details.
00011 
00012      This software is distributed WITHOUT ANY WARRANTY; without even
00013      the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
00014      PURPOSE.  See the above copyright notices for more information.
00015 
00016 =========================================================================*/
00017 #ifndef __itkFEMImageMetricLoad_h
00018 #define __itkFEMImageMetricLoad_h
00019 
00020 #include "itkFEMLoadElementBase.h"
00021 
00022 #include "itkImage.h"
00023 #include "itkTranslationTransform.h"
00024 
00025 #include "itkImageRegionIteratorWithIndex.h"
00026 #include "itkNeighborhoodIterator.h"
00027 #include "itkNeighborhoodIterator.h"
00028 #include "itkNeighborhoodInnerProduct.h"
00029 #include "itkDerivativeOperator.h"
00030 #include "itkForwardDifferenceOperator.h"
00031 #include "itkLinearInterpolateImageFunction.h"
00032 #include "vnl/vnl_math.h"
00033 
00034 #include <itkMutualInformationImageToImageMetric.h>
00035 #include <itkMattesMutualInformationImageToImageMetric.h>
00036 #include <itkMeanSquaresImageToImageMetric.h>
00037 #include <itkNormalizedCorrelationImageToImageMetric.h>
00038 //#include <itkMeanReciprocalSquareDifferenceImageToImageMetric.h>
00039 
00040 
00041 namespace itk 
00042 {
00043 namespace fem
00044 {
00045 
00069 template<class TMoving,class TFixed> 
00070 class ImageMetricLoad : public LoadElement
00071 {
00072   FEM_CLASS(ImageMetricLoad,LoadElement)
00073 public:
00074 
00075   // Necessary typedefs for dealing with images BEGIN
00076   typedef typename LoadElement::Float Float;
00077 
00078   typedef TMoving                            MovingType;
00079   typedef typename MovingType::ConstPointer  MovingConstPointer;
00080   typedef MovingType*                        MovingPointer;
00081   typedef TFixed                             FixedType;
00082   typedef FixedType*                         FixedPointer;
00083   typedef typename FixedType::ConstPointer   FixedConstPointer;
00084 
00086   itkStaticConstMacro(ImageDimension, unsigned int,
00087                       MovingType::ImageDimension);
00088 
00089   typedef ImageRegionIteratorWithIndex<MovingType> RefRegionIteratorType; 
00090   typedef ImageRegionIteratorWithIndex<FixedType>    TarRegionIteratorType; 
00091   
00092 
00093   typedef NeighborhoodIterator<MovingType> 
00094                                      MovingNeighborhoodIteratorType; 
00095   typedef typename MovingNeighborhoodIteratorType::IndexType  
00096                                      MovingNeighborhoodIndexType;
00097   typedef typename MovingNeighborhoodIteratorType::RadiusType 
00098                                      MovingRadiusType;
00099   typedef NeighborhoodIterator<FixedType> 
00100                                      FixedNeighborhoodIteratorType; 
00101   typedef typename FixedNeighborhoodIteratorType::IndexType  
00102                                      FixedNeighborhoodIndexType;
00103   typedef typename FixedNeighborhoodIteratorType::RadiusType 
00104                                      FixedRadiusType;
00105 
00106 
00107 // IMAGE DATA
00108   typedef   typename  MovingType::PixelType   RefPixelType;
00109   typedef   typename  FixedType::PixelType    TarPixelType;
00110   typedef   Float                             PixelType;
00111   typedef   Float                             ComputationType;
00112   typedef   Image< RefPixelType, itkGetStaticConstMacro(ImageDimension) >       RefImageType;
00113   typedef   Image< TarPixelType, itkGetStaticConstMacro(ImageDimension) >       TarImageType;
00114   typedef   Image< PixelType, itkGetStaticConstMacro(ImageDimension) >            ImageType;
00115   typedef   vnl_vector<Float>                             VectorType;
00116 
00117 // Necessary typedefs for dealing with images END
00118  
00119 //------------------------------------------------------------
00120 // Set up the metrics
00121 //------------------------------------------------------------
00122   typedef double                   CoordinateRepresentationType;
00123   typedef Transform< CoordinateRepresentationType,itkGetStaticConstMacro(ImageDimension), itkGetStaticConstMacro(ImageDimension) > TransformBaseType;
00124   typedef TranslationTransform<CoordinateRepresentationType,  itkGetStaticConstMacro(ImageDimension) >  DefaultTransformType;
00125 
00127   typedef   ImageToImageMetric<FixedType,MovingType > MetricBaseType;
00128   typedef typename MetricBaseType::Pointer            MetricBaseTypePointer;
00129 
00130   typedef   MutualInformationImageToImageMetric<  MovingType, FixedType   > MutualInformationMetricType;
00131 
00132   typedef   MeanSquaresImageToImageMetric< MovingType, FixedType   > MeanSquaresMetricType;
00133 
00134   typedef   NormalizedCorrelationImageToImageMetric< MovingType, FixedType  > NormalizedCorrelationMetricType;
00135 
00136   typedef  MeanSquaresMetricType                                DefaultMetricType;
00137   typedef typename DefaultTransformType::ParametersType         ParametersType;
00138   typedef typename DefaultTransformType::JacobianType           JacobianType;
00139 
00140 
00141 //------------------------------------------------------------
00142 // Set up an Interpolator
00143 //------------------------------------------------------------
00144   typedef LinearInterpolateImageFunction< MovingType, double > InterpolatorType;
00145 
00147   typedef float RealType;
00148   typedef CovariantVector<RealType,
00149           itkGetStaticConstMacro(ImageDimension)> GradientPixelType;
00150   typedef Image<GradientPixelType,
00151                itkGetStaticConstMacro(ImageDimension)> GradientImageType;
00152   typedef SmartPointer<GradientImageType>     GradientImagePointer;
00153   typedef GradientRecursiveGaussianImageFilter< ImageType,
00154                                                 GradientImageType >
00155           GradientImageFilterType;  
00156   //  typedef typename GradientImageFilterType::Pointer GradientImageFilterPointer;
00158 
00159 
00160 // FUNCTIONS
00161 
00163   void SetMetric(MetricBaseTypePointer MP)
00164     { m_Metric=MP; }
00165 
00167   void SetMovingImage(MovingType* R)
00168     { 
00169     m_RefImage = R; 
00170     m_RefSize=m_RefImage->GetLargestPossibleRegion().GetSize();
00171     }
00173 
00174   void SetMetricMovingImage(MovingType* R)  
00175     { 
00176     m_Metric->SetMovingImage( R ); 
00177     m_RefSize=R->GetLargestPossibleRegion().GetSize(); 
00178     }
00179 
00181   void SetFixedImage(FixedType* T)
00182     { 
00183     m_TarImage=T; 
00184     m_TarSize=T->GetLargestPossibleRegion().GetSize(); 
00185     }
00186   void SetMetricFixedImage(FixedType* T)  
00187     { 
00188     m_Metric->SetFixedImage( T );
00189     m_TarSize=T->GetLargestPossibleRegion().GetSize(); 
00190     }
00192 
00193   MovingPointer GetMovingImage()
00194     { return m_RefImage; }
00195   FixedPointer GetFixedImage() { return m_TarImage; }
00196 
00198   void SetMetricRadius(MovingRadiusType T) {m_MetricRadius  = T; }   
00199 
00201   MovingRadiusType GetMetricRadius() { return m_MetricRadius; }
00202 
00207   void SetNumberOfIntegrationPoints(unsigned int i)
00208     { m_NumberOfIntegrationPoints=i;}
00209   unsigned int GetNumberOfIntegrationPoints()
00210     { return m_NumberOfIntegrationPoints;}
00212 
00216   void SetSign(Float s)
00217     {m_Sign=s;}
00218 
00220   void SetTemp(Float s)
00221     {m_Temp=s;}
00222 
00224   void SetGamma(Float s)
00225     {m_Gamma=s;}
00226 
00227   void SetSolution(Solution::ConstPointer ptr)
00228     {  m_Solution=ptr; }
00229   Solution::ConstPointer GetSolution()
00230     { return m_Solution; }
00231 
00235   Float GetMetric (VectorType  InVec);
00236   VectorType GetPolynomialFitToMetric(VectorType PositionInElement, VectorType SolutionAtPosition);
00238 
00239   VectorType MetricFiniteDiff(VectorType PositionInElement, VectorType SolutionAtPosition);
00240 
00241   // FIXME - WE ASSUME THE 2ND VECTOR (INDEX 1) HAS THE INFORMATION WE WANT
00242   Float GetSolution(unsigned int i,unsigned int which=0)
00243     {  
00244     return m_Solution->GetSolutionValue(i,which); 
00245     }
00246   
00247 // define the copy constructor 
00248 //  ImageMetricLoad(const ImageMetricLoad& LMS);
00249 
00250   void InitializeMetric(void);
00251   ImageMetricLoad(); // cannot be private until we always use smart pointers
00252   Float EvaluateMetricGivenSolution ( Element::ArrayType* el, Float step=1.0);
00253  
00257   VectorType Fe1(VectorType);
00258   VectorType Fe(VectorType,VectorType);
00260 
00261   static Baseclass* NewImageMetricLoad(void)
00262     { return new ImageMetricLoad; }
00263 
00265   //void InitializeGradientImage();
00266   void SetMetricGradientImage(GradientImageType* g)
00267     { m_MetricGradientImage=g;}
00268   GradientImageType* GetMetricGradientImage()
00269     { return  m_MetricGradientImage;}
00271 
00272 
00273   void PrintCurrentEnergy()
00274     { std:: cout << " energy " << m_Energy << std::endl;}
00275   double GetCurrentEnergy()
00276     { return m_Energy; }
00277   void  SetCurrentEnergy( double e )
00278     { m_Energy=e; }
00279 
00280 protected:
00281 
00282 
00283 private:
00284   GradientImageType*            m_MetricGradientImage;
00285   MovingPointer                 m_RefImage;
00286   FixedPointer                  m_TarImage;
00288   typename MovingType::SizeType m_RefSize;
00289   typename FixedType::SizeType  m_TarSize;
00290   unsigned int                  m_NumberOfIntegrationPoints;
00291   unsigned int                  m_SolutionIndex;
00292   unsigned int                  m_SolutionIndex2;
00293   Float                         m_Sign;
00294   Float                         m_Temp;
00295   Float                         m_Gamma;
00296 
00297   typename Solution::ConstPointer     m_Solution;
00298   MetricBaseTypePointer               m_Metric;
00299   typename TransformBaseType::Pointer m_Transform;
00300   typename InterpolatorType::Pointer  m_Interpolator;
00301 
00302   mutable double                       m_Energy;
00303 private:
00306   static const int m_DummyCLID;
00307 
00308 };
00309 
00310 }} // end namespace fem/itk
00311 
00312 #ifndef ITK_MANUAL_INSTANTIATION
00313 #include "itkFEMImageMetricLoad.txx"
00314 #endif
00315 
00316 #endif
00317 

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