itkAdvancedTransform.h

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 *
 *  Copyright UMC Utrecht and contributors
 *
 *  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
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/*=========================================================================
 
  Program:   Insight Segmentation & Registration Toolkit
  Module:    $RCSfile: itkTransform.h,v $
  Date:      $Date: 2008-06-29 12:58:58 $
  Version:   $Revision: 1.64 $
 
  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 itkAdvancedTransform_h
#define itkAdvancedTransform_h
 
#include "itkTransform.h"
#include "itkMatrix.h"
#include "itkFixedArray.h"
#include <cassert>
 
namespace itk
{
 
template <class TScalarType, unsigned int NInputDimensions = 3, unsigned int NOutputDimensions = 3>
class ITK_TEMPLATE_EXPORT AdvancedTransform : public Transform<TScalarType, NInputDimensions, NOutputDimensions>
{
public:
  ITK_DISALLOW_COPY_AND_MOVE(AdvancedTransform);
 
  using Self = AdvancedTransform;
  using Superclass = Transform<TScalarType, NInputDimensions, NOutputDimensions>;
  using Pointer = SmartPointer<Self>;
  using ConstPointer = SmartPointer<const Self>;
 
  // itkNewMacro( Self );
 
  itkTypeMacro(AdvancedTransform, Transform);
 
  itkStaticConstMacro(InputSpaceDimension, unsigned int, NInputDimensions);
  itkStaticConstMacro(OutputSpaceDimension, unsigned int, NOutputDimensions);
 
  using typename Superclass::ScalarType;
  using typename Superclass::ParametersType;
  using typename Superclass::FixedParametersType;
  using typename Superclass::ParametersValueType;
  using typename Superclass::NumberOfParametersType;
  using typename Superclass::DerivativeType;
  using typename Superclass::JacobianType;
  using typename Superclass::InputVectorType;
  using typename Superclass::OutputVectorType;
  using typename Superclass::InputCovariantVectorType;
  using typename Superclass::OutputCovariantVectorType;
  using typename Superclass::InputVnlVectorType;
  using typename Superclass::OutputVnlVectorType;
  using typename Superclass::InputPointType;
  using typename Superclass::OutputPointType;
 
  using InverseTransformBaseType = typename Superclass::InverseTransformBaseType;
  using typename Superclass::InverseTransformBasePointer;
 
  using TransformType = Transform<TScalarType, NInputDimensions, NOutputDimensions>;
  using TransformTypePointer = typename TransformType::Pointer;
  using TransformTypeConstPointer = typename TransformType::ConstPointer;
 
  using NonZeroJacobianIndicesType = std::vector<unsigned long>;
  using SpatialJacobianType = Matrix<ScalarType, OutputSpaceDimension, InputSpaceDimension>;
  using JacobianOfSpatialJacobianType = std::vector<SpatialJacobianType>;
  // \todo: think about the SpatialHessian type, should be a 3D native type
  using SpatialHessianType =
    FixedArray<Matrix<ScalarType, InputSpaceDimension, InputSpaceDimension>, OutputSpaceDimension>;
  using JacobianOfSpatialHessianType = std::vector<SpatialHessianType>;
  using InternalMatrixType = typename SpatialJacobianType::InternalMatrixType;
 
  using MovingImageGradientType = OutputCovariantVectorType;
  using MovingImageGradientValueType = typename MovingImageGradientType::ValueType;
 
  virtual NumberOfParametersType
  GetNumberOfNonZeroJacobianIndices() const;
 
  itkGetConstMacro(HasNonZeroSpatialHessian, bool);
  itkGetConstMacro(HasNonZeroJacobianOfSpatialHessian, bool);
 
  virtual void
  GetJacobian(const InputPointType &       inputPoint,
              JacobianType &               j,
              NonZeroJacobianIndicesType & nonZeroJacobianIndices) const = 0;
 
  virtual void
  EvaluateJacobianWithImageGradientProduct(const InputPointType &          inputPoint,
                                           const MovingImageGradientType & movingImageGradient,
                                           DerivativeType &                imageJacobian,
                                           NonZeroJacobianIndicesType &    nonZeroJacobianIndices) const;
 
  virtual void
  GetSpatialJacobian(const InputPointType & inputPoint, SpatialJacobianType & sj) const = 0;
 
  void
  ComputeJacobianWithRespectToParameters(const InputPointType & itkNotUsed(p),
                                         JacobianType &         itkNotUsed(j)) const override
  {
    itkExceptionMacro("This ITK4 function is currently not used in elastix.");
  }
 
 
  virtual void
  GetSpatialHessian(const InputPointType & inputPoint, SpatialHessianType & sh) const = 0;
 
  virtual void
  GetJacobianOfSpatialJacobian(const InputPointType &          inputPoint,
                               JacobianOfSpatialJacobianType & jsj,
                               NonZeroJacobianIndicesType &    nonZeroJacobianIndices) const = 0;
 
  virtual void
  GetJacobianOfSpatialJacobian(const InputPointType &          inputPoint,
                               SpatialJacobianType &           sj,
                               JacobianOfSpatialJacobianType & jsj,
                               NonZeroJacobianIndicesType &    nonZeroJacobianIndices) const = 0;
 
  virtual void
  GetJacobianOfSpatialHessian(const InputPointType &         inputPoint,
                              JacobianOfSpatialHessianType & jsh,
                              NonZeroJacobianIndicesType &   nonZeroJacobianIndices) const = 0;
 
  virtual void
  GetJacobianOfSpatialHessian(const InputPointType &         inputPoint,
                              SpatialHessianType &           sh,
                              JacobianOfSpatialHessianType & jsh,
                              NonZeroJacobianIndicesType &   nonZeroJacobianIndices) const = 0;
 
protected:
  AdvancedTransform() = default;
 
  // Inherit the other (non-default) constructor from itk::Transform.
  using Superclass::Superclass;
 
  ~AdvancedTransform() override = default;
 
  bool m_HasNonZeroSpatialHessian{ true };
  bool m_HasNonZeroJacobianOfSpatialHessian{ true };
};
 
namespace ImplementationDetails
{
template <class TScalarType, unsigned int VInputVectorSize>
void
EvaluateInnerProduct(const vnl_matrix<TScalarType> &                        inputMatrix,
                     const CovariantVector<TScalarType, VInputVectorSize> & inputVector,
                     vnl_vector<TScalarType> &                              outputVector)
{
  assert(inputMatrix.rows() == inputVector.size());
  assert(inputMatrix.columns() == outputVector.size());
 
  auto inputMatrixIterator = inputMatrix.begin();
 
  outputVector.fill(0.0);
 
  for (const double inputVectorElement : inputVector)
  {
    for (auto & outputVectorElement : outputVector)
    {
      outputVectorElement += (*inputMatrixIterator) * inputVectorElement;
      ++inputMatrixIterator;
    }
  }
}
} // namespace ImplementationDetails
 
} // end namespace itk
 
#ifndef ITK_MANUAL_INSTANTIATION
#  include "itkAdvancedTransform.hxx"
#endif
 
#endif