itkVectorConfidenceConnectedImageFilter.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
 *
 *         https://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 itkVectorConfidenceConnectedImageFilter_h
#define itkVectorConfidenceConnectedImageFilter_h
 
#include "itkImageToImageFilter.h"
#include "itkMahalanobisDistanceThresholdImageFunction.h"
 
namespace itk
{
template <typename TInputImage, typename TOutputImage>
class ITK_TEMPLATE_EXPORT VectorConfidenceConnectedImageFilter : public ImageToImageFilter<TInputImage, TOutputImage>
{
public:
  ITK_DISALLOW_COPY_AND_MOVE(VectorConfidenceConnectedImageFilter);

  using Self = VectorConfidenceConnectedImageFilter;
  using Superclass = ImageToImageFilter<TInputImage, TOutputImage>;
  using Pointer = SmartPointer<Self>;
  using ConstPointer = SmartPointer<const Self>;

  itkNewMacro(Self);

  itkOverrideGetNameOfClassMacro(VectorConfidenceConnectedImageFilter);
 
  using InputImageType = TInputImage;
  using InputImagePointer = typename InputImageType::Pointer;
  using InputImageRegionType = typename InputImageType::RegionType;
  using InputImagePixelType = typename InputImageType::PixelType;
  using IndexType = typename InputImageType::IndexType;
  using SizeType = typename InputImageType::SizeType;
 
  using OutputImageType = TOutputImage;
  using OutputImagePointer = typename OutputImageType::Pointer;
  using OutputImageRegionType = typename OutputImageType::RegionType;
  using OutputImagePixelType = typename OutputImageType::PixelType;
 
  using SeedsContainerType = std::vector<IndexType>;
 
  using DistanceThresholdFunctionType = MahalanobisDistanceThresholdImageFunction<InputImageType>;
 
  using CovarianceMatrixType = typename DistanceThresholdFunctionType::CovarianceMatrixType;
  using MeanVectorType = typename DistanceThresholdFunctionType::MeanVectorType;
 
  using DistanceThresholdFunctionPointer = typename DistanceThresholdFunctionType::Pointer;
 
  void
  PrintSelf(std::ostream & os, Indent indent) const override;

  void
  SetSeed(const IndexType & seed);

  void
  AddSeed(const IndexType & seed);

  void
  ClearSeeds();

  itkSetMacro(Multiplier, double);
  itkGetConstMacro(Multiplier, double);

  itkSetMacro(NumberOfIterations, unsigned int);
  itkGetConstMacro(NumberOfIterations, unsigned int);

  itkSetMacro(ReplaceValue, OutputImagePixelType);
  itkGetConstMacro(ReplaceValue, OutputImagePixelType);

  itkSetMacro(InitialNeighborhoodRadius, unsigned int);
  itkGetConstReferenceMacro(InitialNeighborhoodRadius, unsigned int);

  const MeanVectorType &
  GetMean() const;

  const CovarianceMatrixType &
  GetCovariance() const;

  virtual const SeedsContainerType &
  GetSeeds() const;
 
  itkConceptMacro(OutputEqualityComparableCheck, (Concept::EqualityComparable<OutputImagePixelType>));
  itkConceptMacro(InputHasNumericTraitsCheck, (Concept::HasNumericTraits<typename InputImagePixelType::ValueType>));
  itkConceptMacro(OutputOStreamWritableCheck, (Concept::OStreamWritable<OutputImagePixelType>));
 
protected:
  VectorConfidenceConnectedImageFilter();
 
  // Override since the filter needs all the data for the algorithm
  void
  GenerateInputRequestedRegion() override;
 
  // Override since the filter produces the entire dataset
  void
  EnlargeOutputRequestedRegion(DataObject * output) override;
 
  void
  GenerateData() override;
 
private:
  SeedsContainerType   m_Seeds{};
  double               m_Multiplier{};
  unsigned int         m_NumberOfIterations{};
  OutputImagePixelType m_ReplaceValue{};
  unsigned int         m_InitialNeighborhoodRadius{};
 
  DistanceThresholdFunctionPointer m_ThresholdFunction{};
};
} // end namespace itk
 
#ifndef ITK_MANUAL_INSTANTIATION
#  include "itkVectorConfidenceConnectedImageFilter.hxx"
#endif
 
#endif