itkCumulativeGaussianOptimizer.h

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/*=========================================================================
 *
 *  Copyright Insight Software Consortium
 *
 *  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 __itkCumulativeGaussianOptimizer_h
#define __itkCumulativeGaussianOptimizer_h

#include "itkMultipleValuedNonLinearOptimizer.h"
#include "itkCumulativeGaussianCostFunction.h"

namespace itk
{
class CumulativeGaussianOptimizer:
  public MultipleValuedNonLinearOptimizer
{
public:

  typedef CumulativeGaussianOptimizer      Self;
  typedef MultipleValuedNonLinearOptimizer Superclass;
  typedef SmartPointer< Self >             Pointer;
  typedef SmartPointer< const Self >       ConstPointer;

  typedef CumulativeGaussianCostFunction CostFunctionType;

  typedef CostFunctionType::MeasureType MeasureType;

  itkNewMacro(Self);

  itkTypeMacro(CumulativeGaussianOptimizer, MultipleValuedNonLinearOptimizer);

  itkSetMacro(DifferenceTolerance, double);
  itkGetMacro(DifferenceTolerance, double);
  itkSetMacro(Verbose, bool);
  itkGetMacro(Verbose, bool);
  itkGetMacro(ComputedMean, double);
  itkGetMacro(ComputedStandardDeviation, double);
  itkGetMacro(UpperAsymptote, double);
  itkGetMacro(LowerAsymptote, double);
  itkGetMacro(FinalSampledArray, MeasureType *);
  itkGetMacro(FitError, double);

  void SetDataArray(MeasureType *dataArray);

  virtual void StartOptimization() ITK_OVERRIDE;

  void PrintArray(MeasureType *array);

  virtual const std::string GetStopConditionDescription() const ITK_OVERRIDE;

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

private:

  double m_DifferenceTolerance;

  double m_ComputedMean;

  double m_ComputedStandardDeviation;

  double m_ComputedAmplitude;

  double m_ComputedTransitionHeight;

  double m_UpperAsymptote;

  double m_LowerAsymptote;

  double m_OffsetForMean;

  bool m_Verbose;

  double m_FitError;

  MeasureType *m_FinalSampledArray;

  MeasureType *m_CumulativeGaussianArray;

  MeasureType * ExtendGaussian(MeasureType *originalArray, MeasureType *extendedArray, int startingPointForInsertion);

  MeasureType * RecalculateExtendedArrayFromGaussianParameters(MeasureType *originalArray,
                                                               MeasureType *extendedArray,
                                                               int startingPointForInsertion);

  double FindAverageSumOfSquaredDifferences(MeasureType *array1, MeasureType *array2);

  void FindParametersOfGaussian(MeasureType *sampledGaussianArray);

  void MeasureGaussianParameters(MeasureType *array);

  void PrintComputedParameterHeader();

  void PrintComputedParameters();

  double VerticalBestShift(MeasureType *originalArray, MeasureType *newArray);

  std::ostringstream m_StopConditionDescription;
};
} // end namespace itk

#endif