itkKernelTransform.h

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

  Program:   Insight Segmentation & Registration Toolkit
  Module:    $RCSfile: itkKernelTransform.h,v $
  Language:  C++
  Date:      $Date: 2009-05-17 14:27:01 $
  Version:   $Revision: 1.49 $

  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 __itkKernelTransform_h
#define __itkKernelTransform_h

#include "itkTransform.h"
#include "itkPoint.h"
#include "itkVector.h"
#include "itkMatrix.h"
#include "itkPointSet.h"
#include <deque>
#include <math.h>
#include "vnl/vnl_matrix_fixed.h"
#include "vnl/vnl_matrix.h"
#include "vnl/vnl_vector.h"
#include "vnl/vnl_vector_fixed.h"
#include "vnl/algo/vnl_svd.h"
#include "vnl/vnl_sample.h"

namespace itk
{

template <class TScalarType, // probably only float and double make sense here
          unsigned int NDimensions>   // Number of dimensions
class ITK_EXPORT KernelTransform : 
                    public Transform<TScalarType, NDimensions,NDimensions>
{
public:
  typedef KernelTransform                                   Self;
  typedef Transform<TScalarType, NDimensions, NDimensions > Superclass;
  typedef SmartPointer<Self>                                Pointer;
  typedef SmartPointer<const Self>                          ConstPointer;

  itkTypeMacro( KernelTransform, Transform );

  itkNewMacro( Self );

  itkStaticConstMacro(SpaceDimension, unsigned int, NDimensions);

  typedef typename Superclass::ScalarType  ScalarType;

  typedef typename Superclass::ParametersType  ParametersType;

  typedef typename Superclass::JacobianType  JacobianType;

  typedef typename Superclass::InputPointType   InputPointType;
  typedef typename Superclass::OutputPointType  OutputPointType;

  typedef typename Superclass::InputVectorType   InputVectorType;
  typedef typename Superclass::OutputVectorType  OutputVectorType;

  typedef DefaultStaticMeshTraits<TScalarType, NDimensions,
                                  NDimensions, TScalarType,
                                  TScalarType>          PointSetTraitsType;
  typedef PointSet<InputPointType, NDimensions, PointSetTraitsType> 
                                                        PointSetType;
  typedef typename PointSetType::Pointer                PointSetPointer;
  typedef typename PointSetType::PointsContainer        PointsContainer;
  typedef typename PointSetType::PointsContainerIterator 
                                                        PointsIterator;
  typedef typename PointSetType::PointsContainerConstIterator
                                                        PointsConstIterator;

  typedef itk::VectorContainer<unsigned long,InputVectorType> VectorSetType;
  typedef typename VectorSetType::Pointer                     VectorSetPointer;

  itkGetObjectMacro( SourceLandmarks, PointSetType);

  virtual void SetSourceLandmarks(PointSetType *);

  itkGetObjectMacro( TargetLandmarks, PointSetType);

  virtual void SetTargetLandmarks(PointSetType *);

  itkGetObjectMacro( Displacements, VectorSetType );

  void ComputeWMatrix(void);

  virtual OutputPointType TransformPoint(const InputPointType& thisPoint) const;

  typedef vnl_matrix_fixed<TScalarType, NDimensions, NDimensions> IMatrixType;


  virtual const JacobianType & GetJacobian(const InputPointType  &point) const;

  virtual void SetParameters(const ParametersType &);

  virtual void SetFixedParameters(const ParametersType &);

  virtual void UpdateParameters(void) const;

  virtual const ParametersType& GetParameters(void) const;

  virtual const ParametersType& GetFixedParameters(void) const;

  virtual bool IsLinear() const { return false; }

  itkSetClampMacro(Stiffness, double, 0.0, NumericTraits<double>::max());
  itkGetConstMacro(Stiffness, double);


protected:
  KernelTransform();
  virtual ~KernelTransform();
  void PrintSelf(std::ostream& os, Indent indent) const;

public:  
  typedef vnl_matrix_fixed<TScalarType, NDimensions, NDimensions> GMatrixType;

  typedef vnl_matrix<TScalarType> LMatrixType;

  typedef vnl_matrix<TScalarType> KMatrixType;

  typedef vnl_matrix<TScalarType> PMatrixType;

  typedef vnl_matrix<TScalarType> YMatrixType;

  typedef vnl_matrix<TScalarType> WMatrixType;

  typedef vnl_matrix<TScalarType> DMatrixType;

  typedef vnl_matrix_fixed<TScalarType,NDimensions,NDimensions> AMatrixType;

  typedef vnl_vector_fixed<TScalarType,NDimensions> BMatrixType;

  typedef vnl_matrix_fixed<TScalarType, 1, NDimensions> RowMatrixType;

  typedef vnl_matrix_fixed<TScalarType, NDimensions, 1> ColumnMatrixType;

 
protected:
  virtual void ComputeG(const InputVectorType& landmarkVector, 
                        GMatrixType & gmatrix ) const;

  itkLegacyMacro( virtual const GMatrixType & ComputeG(
                                  const InputVectorType & landmarkVector 
                                  ) const );


  virtual const GMatrixType & ComputeReflexiveG(PointsIterator) const;

  
  virtual void ComputeDeformationContribution( 
                                          const InputPointType & inputPoint,
                                          OutputPointType & result ) const;

  void ComputeK();

  void ComputeL();

  void ComputeP();

  void ComputeY();

  void ComputeD();

  void ReorganizeW(void);

  double m_Stiffness;

  VectorSetPointer m_Displacements;

  LMatrixType m_LMatrix;

  KMatrixType m_KMatrix;

  PMatrixType m_PMatrix;

  YMatrixType m_YMatrix;

  WMatrixType m_WMatrix;

  DMatrixType m_DMatrix;

  AMatrixType m_AMatrix;

  BMatrixType m_BVector;

  mutable GMatrixType m_GMatrix;

  bool m_WMatrixComputed;

  IMatrixType m_I;

  PointSetPointer m_SourceLandmarks;

  PointSetPointer m_TargetLandmarks;

private:
  KernelTransform(const Self&); //purposely not implemented
  void operator=(const Self&); //purposely not implemented

};

} // end namespace itk

// Define instantiation macro for this template.
#define ITK_TEMPLATE_KernelTransform(_, EXPORT, x, y) namespace itk { \
  _(2(class EXPORT KernelTransform< ITK_TEMPLATE_2 x >)) \
  namespace Templates { typedef KernelTransform< ITK_TEMPLATE_2 x > \
                                                  KernelTransform##y; } \
  }

#if ITK_TEMPLATE_EXPLICIT
# include "Templates/itkKernelTransform+-.h"
#endif

#if ITK_TEMPLATE_TXX
# include "itkKernelTransform.txx"
#endif

#endif // __itkKernelTransform_h

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