itkImagePCAShapeModelEstimator.h

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/*=========================================================================
 *
 *  Copyright NumFOCUS
 *
 *  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.
 *
 *=========================================================================*/
#ifndef itkImagePCAShapeModelEstimator_h
#define itkImagePCAShapeModelEstimator_h
 
#include <ctime>
#include <cmath>
#include <cfloat>
 
#include "vnl/vnl_vector.h"
#include "vnl/vnl_matrix.h"
#include "itkMath.h"
#include "vnl/algo/vnl_matrix_inverse.h"
 
#include "itkImageRegionIterator.h"
#include "itkMacro.h"
 
#include "itkImageShapeModelEstimatorBase.h"
#include "itkConceptChecking.h"
#include "itkImage.h"
#include "vnl/algo/vnl_generalized_eigensystem.h"
#include "vnl/algo/vnl_symmetric_eigensystem.h"
 
namespace itk
{
template <typename TInputImage, typename TOutputImage = Image<double, TInputImage::ImageDimension>>
class ITK_TEMPLATE_EXPORT ImagePCAShapeModelEstimator : public ImageShapeModelEstimatorBase<TInputImage, TOutputImage>
{
public:
  ITK_DISALLOW_COPY_AND_MOVE(ImagePCAShapeModelEstimator);
 
  using Self = ImagePCAShapeModelEstimator;
  using Superclass = ImageShapeModelEstimatorBase<TInputImage, TOutputImage>;
  using Pointer = SmartPointer<Self>;
  using ConstPointer = SmartPointer<const Self>;
 
  itkNewMacro(Self);
 
  itkTypeMacro(ImagePCAShapeModelEstimator, ImageShapeModelEstimatorBase);
 
  using InputImageType = TInputImage;
  using InputImagePointer = typename TInputImage::Pointer;
  using InputImageConstPointer = typename TInputImage::ConstPointer;
 
  using InputImagePixelType = typename TInputImage::PixelType;
 
  using InputImageIterator = ImageRegionIterator<TInputImage>;
  using InputImageConstIterator = ImageRegionConstIterator<TInputImage>;
 
  static constexpr unsigned int InputImageDimension = TInputImage::ImageDimension;
 
  using OutputImageType = TOutputImage;
  using OutputImagePointer = typename TOutputImage::Pointer;
 
  using OutputImageIterator = ImageRegionIterator<TOutputImage>;
 
  using MatrixOfDoubleType = vnl_matrix<double>;
 
  using MatrixOfIntegerType = vnl_matrix<int>;
 
  using VectorOfDoubleType = vnl_vector<double>;
 
  virtual void
  SetNumberOfPrincipalComponentsRequired(unsigned int n);
 
  itkGetConstMacro(NumberOfPrincipalComponentsRequired, unsigned int);
 
  virtual void
  SetNumberOfTrainingImages(unsigned int n);
 
  itkGetConstMacro(NumberOfTrainingImages, unsigned int);
 
  itkGetConstMacro(EigenValues, VectorOfDoubleType);
 
protected:
  ImagePCAShapeModelEstimator();
  ~ImagePCAShapeModelEstimator() override = default;
  void
  PrintSelf(std::ostream & os, Indent indent) const override;
 
  void
  EnlargeOutputRequestedRegion(DataObject *) override;
 
  void
  GenerateInputRequestedRegion() override;
 
  void
  GenerateData() override;
 
private:
  using InputImagePointerArray = std::vector<InputImageConstPointer>;
  using InputImageIteratorArray = std::vector<InputImageConstIterator>;
 
  using ImageSizeType = typename TInputImage::SizeType;
 
  using InputPixelType = typename TInputImage::PixelType;
 
  void
  EstimateShapeModels() override;
 
  void
  EstimatePCAShapeModelParameters();
 
  void
  CalculateInnerProduct();
 
  InputImageIteratorArray m_InputImageIteratorArray;
 
  VectorOfDoubleType m_Means;
 
  MatrixOfDoubleType m_InnerProduct;
 
  MatrixOfDoubleType m_EigenVectors;
 
  VectorOfDoubleType m_EigenValues;
 
  VectorOfDoubleType m_EigenVectorNormalizedEnergy;
 
  ImageSizeType m_InputImageSize{ {} };
 
  unsigned int m_NumberOfPixels{ 0 };
 
  // The number of input images for PCA
  unsigned int m_NumberOfTrainingImages{ 0 };
 
  // The number of output Principal Components
  unsigned int m_NumberOfPrincipalComponentsRequired;
}; // class ImagePCAShapeModelEstimator
} // namespace itk
 
#ifndef ITK_MANUAL_INSTANTIATION
#  include "itkImagePCAShapeModelEstimator.hxx"
#endif
 
#endif