itkMattesMutualInformationImageToImageMetric.h

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/*=========================================================================

  Program:   Insight Segmentation & Registration Toolkit
  Module:    $RCSfile: itkMattesMutualInformationImageToImageMetric.h,v $
  Language:  C++
  Date:      $Date: 2006/08/02 11:56:03 $
  Version:   $Revision: 1.17 $

  Copyright (c) Insight Software Consortium. All rights reserved.
  See ITKCopyright.txt or http://www.itk.org/HTML/Copyright.htm for details.

     This software is distributed WITHOUT ANY WARRANTY; without even 
     the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
     PURPOSE.  See the above copyright notices for more information.

=========================================================================*/
#ifndef __itkMattesMutualInformationImageToImageMetric_h
#define __itkMattesMutualInformationImageToImageMetric_h

#include "itkImageToImageMetric.h"
#include "itkCovariantVector.h"
#include "itkPoint.h"
#include "itkIndex.h"
#include "itkBSplineKernelFunction.h"
#include "itkBSplineDerivativeKernelFunction.h"
#include "itkCentralDifferenceImageFunction.h"
#include "itkBSplineInterpolateImageFunction.h"
#include "itkBSplineDeformableTransform.h"
#include "itkArray2D.h"

namespace itk
{

template <class TFixedImage,class TMovingImage >
class ITK_EXPORT MattesMutualInformationImageToImageMetric :
    public ImageToImageMetric< TFixedImage, TMovingImage >
{
public:

  typedef MattesMutualInformationImageToImageMetric  Self;
  typedef ImageToImageMetric< TFixedImage, TMovingImage > Superclass;
  typedef SmartPointer<Self>  Pointer;
  typedef SmartPointer<const Self>  ConstPointer;

  itkNewMacro(Self);

  itkTypeMacro(MattesMutualInformationImageToImageMetric, ImageToImageMetric);

  typedef typename Superclass::TransformType            TransformType;
  typedef typename Superclass::TransformPointer         TransformPointer;
  typedef typename Superclass::TransformJacobianType    TransformJacobianType;
  typedef typename Superclass::InterpolatorType         InterpolatorType;
  typedef typename Superclass::MeasureType              MeasureType;
  typedef typename Superclass::DerivativeType           DerivativeType;
  typedef typename Superclass::ParametersType           ParametersType;
  typedef typename Superclass::FixedImageType           FixedImageType;
  typedef typename Superclass::MovingImageType          MovingImageType;
  typedef typename Superclass::FixedImageConstPointer   FixedImageConstPointer;
  typedef typename Superclass::MovingImageConstPointer  MovingImageCosntPointer;
  typedef typename Superclass::CoordinateRepresentationType
  CoordinateRepresentationType;

  typedef typename FixedImageType::IndexType            FixedImageIndexType;
  typedef typename FixedImageIndexType::IndexValueType  FixedImageIndexValueType;
  typedef typename MovingImageType::IndexType           MovingImageIndexType;
  typedef typename TransformType::InputPointType        FixedImagePointType;
  typedef typename TransformType::OutputPointType       MovingImagePointType;

  itkStaticConstMacro( MovingImageDimension, unsigned int,
                       MovingImageType::ImageDimension );

  virtual void Initialize(void) throw ( ExceptionObject );

  void GetDerivative( 
    const ParametersType& parameters,
    DerivativeType & Derivative ) const;

  MeasureType GetValue( const ParametersType& parameters ) const;

  void GetValueAndDerivative( const ParametersType& parameters, 
                              MeasureType& Value, DerivativeType& Derivative ) const;

  itkSetClampMacro( NumberOfSpatialSamples, unsigned long,
                    1, NumericTraits<unsigned long>::max() );
  itkGetConstReferenceMacro( NumberOfSpatialSamples, unsigned long); 

  itkSetClampMacro( NumberOfHistogramBins, unsigned long,
                    1, NumericTraits<unsigned long>::max() );
  itkGetConstReferenceMacro( NumberOfHistogramBins, unsigned long);   

  void ReinitializeSeed();
  void ReinitializeSeed(int);  

  itkSetMacro(UseAllPixels,bool);
  itkGetConstReferenceMacro(UseAllPixels,bool);
  itkBooleanMacro(UseAllPixels);


protected:

  MattesMutualInformationImageToImageMetric();
  virtual ~MattesMutualInformationImageToImageMetric() {};
  void PrintSelf(std::ostream& os, Indent indent) const;


  class FixedImageSpatialSample
  {
  public:
    FixedImageSpatialSample():FixedImageValue(0.0)
    { FixedImagePointValue.Fill(0.0); }
    ~FixedImageSpatialSample() {};

    FixedImagePointType           FixedImagePointValue;
    double                        FixedImageValue;
    unsigned int                  FixedImageParzenWindowIndex;
  };

  typedef std::vector<FixedImageSpatialSample>  
  FixedImageSpatialSampleContainer;

  FixedImageSpatialSampleContainer    m_FixedImageSamples;

  virtual void SampleFixedImageDomain( 
    FixedImageSpatialSampleContainer& samples);

  virtual void SampleFullFixedImageDomain( 
    FixedImageSpatialSampleContainer& samples);

  virtual void TransformPoint( unsigned int sampleNumber,
                               const ParametersType& parameters,
                               MovingImagePointType& mappedPoint, bool& sampleWithinSupportRegion,
                               double& movingImageValue ) const;

private:

  MattesMutualInformationImageToImageMetric(const Self&); //purposely not implemented
  void operator=(const Self&); //purposely not implemented


  typedef float PDFValueType;
  typedef std::vector<PDFValueType> MarginalPDFType;

  mutable MarginalPDFType m_FixedImageMarginalPDF;

  mutable MarginalPDFType m_MovingImageMarginalPDF;

  typedef Image<PDFValueType,2> JointPDFType;
  typedef Image<PDFValueType,3> JointPDFDerivativesType;
  typedef JointPDFType::IndexType                JointPDFIndexType;
  typedef JointPDFType::PixelType                JointPDFValueType;
  typedef JointPDFType::RegionType              JointPDFRegionType;
  typedef JointPDFType::SizeType                JointPDFSizeType;
  typedef JointPDFDerivativesType::IndexType    JointPDFDerivativesIndexType;
  typedef JointPDFDerivativesType::PixelType    JointPDFDerivativesValueType;
  typedef JointPDFDerivativesType::RegionType    JointPDFDerivativesRegionType;
  typedef JointPDFDerivativesType::SizeType      JointPDFDerivativesSizeType;

  typename JointPDFType::Pointer m_JointPDF;
  typename JointPDFDerivativesType::Pointer m_JointPDFDerivatives;

  unsigned long m_NumberOfSpatialSamples;
  unsigned long m_NumberOfParameters;

  unsigned long m_NumberOfHistogramBins;
  double m_MovingImageNormalizedMin;
  double m_FixedImageNormalizedMin;
  double m_MovingImageTrueMin;
  double m_MovingImageTrueMax;
  double m_FixedImageBinSize;
  double m_MovingImageBinSize;

  typedef BSplineKernelFunction<3> CubicBSplineFunctionType;
  typedef BSplineDerivativeKernelFunction<3> 
  CubicBSplineDerivativeFunctionType;

  typename CubicBSplineFunctionType::Pointer m_CubicBSplineKernel;
  typename CubicBSplineDerivativeFunctionType::Pointer 
  m_CubicBSplineDerivativeKernel;

  virtual void ComputeFixedImageParzenWindowIndices( FixedImageSpatialSampleContainer& samples );

  typedef CovariantVector< double,
                           itkGetStaticConstMacro(MovingImageDimension) > ImageDerivativesType;

  virtual void ComputeImageDerivatives( const MovingImagePointType& mappedPoint,
                                        ImageDerivativesType& gradient ) const;

  bool m_InterpolatorIsBSpline;

  typedef
  BSplineInterpolateImageFunction<MovingImageType,
                                  CoordinateRepresentationType> BSplineInterpolatorType;

  typename BSplineInterpolatorType::Pointer m_BSplineInterpolator;

  typedef CentralDifferenceImageFunction<MovingImageType,
                                         CoordinateRepresentationType> DerivativeFunctionType;

  typename DerivativeFunctionType::Pointer m_DerivativeCalculator;


  virtual void ComputePDFDerivatives( unsigned int sampleNumber,
                                      int movingImageParzenWindowIndex,
                                      const ImageDerivativesType& movingImageGradientValue,
                                      double cubicBSplineDerivativeValue ) const;

  bool m_TransformIsBSpline;

  long m_NumParametersPerDim;

  unsigned long m_NumBSplineWeights;

  itkStaticConstMacro( FixedImageDimension, unsigned int,
                       FixedImageType::ImageDimension );

  enum { DeformationSplineOrder = 3 };

  typedef BSplineDeformableTransform<
    CoordinateRepresentationType,
    ::itk::GetImageDimension<FixedImageType>::ImageDimension,
    DeformationSplineOrder> BSplineTransformType;
  typedef typename BSplineTransformType::WeightsType 
  BSplineTransformWeightsType;
  typedef typename BSplineTransformType::ParameterIndexArrayType 
  BSplineTransformIndexArrayType;

  typename BSplineTransformType::Pointer m_BSplineTransform;

  typedef typename BSplineTransformWeightsType::ValueType WeightsValueType;
  typedef          Array2D<WeightsValueType> BSplineTransformWeightsArrayType;
  typedef typename BSplineTransformIndexArrayType::ValueType IndexValueType;
  typedef          Array2D<IndexValueType> BSplineTransformIndicesArrayType;
  typedef          std::vector<MovingImagePointType> MovingImagePointArrayType;
  typedef          std::vector<bool> BooleanArrayType;

  BSplineTransformWeightsArrayType      m_BSplineTransformWeightsArray;
  BSplineTransformIndicesArrayType      m_BSplineTransformIndicesArray;
  MovingImagePointArrayType             m_PreTransformPointsArray;
  BooleanArrayType                      m_WithinSupportRegionArray;
  
  typedef FixedArray<unsigned long, 
    ::itk::GetImageDimension<FixedImageType>::ImageDimension> ParametersOffsetType;
  ParametersOffsetType                  m_ParametersOffset;

  bool             m_UseAllPixels;

  virtual void PreComputeTransformValues();

  bool             m_ReseedIterator;
  int              m_RandomSeed;
  
};

} // end namespace itk

#ifndef ITK_MANUAL_INSTANTIATION
#include "itkMattesMutualInformationImageToImageMetric.txx"
#endif

#endif

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