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/*=========================================================================
Program: Insight Segmentation & Registration Toolkit
Module: itkKappaSigmaThresholdImageFilter.h
Language: C++
Date: $Date$
Version: $Revision$
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 __itkKappaSigmaThresholdImageFilter_h
#define __itkKappaSigmaThresholdImageFilter_h
#include "itkImageToImageFilter.h"
#include "itkKappaSigmaThresholdImageCalculator.h"
namespace itk {
/** \class KappaSigmaThresholdImageFilter
* \brief Threshold an image using multiple Otsu Thresholds.
*
* This filter creates a labeled image that separates the input
* image into various classes. The filter
* computes the thresholds using the MaximumEntropyThresholdImageCalculator and
* applies those thesholds to the input image using the
* ThresholdLabelerImageFilter. The NumberOfHistogramBins and
* NumberOfThresholds can be set
* for the Calculator. The LabelOffset can be set
* for the ThresholdLabelerImageFilter.
*
* \author Gaetan Lehmann
*
* This class was taken from the Insight Journal paper:
* http://hdl.handle.net/1926/367
*
* \sa ScalarImageToHistogramGenerator
* \sa MaximumEntropyThresholdImageCalculator
* \sa ThresholdLabelerImageFilter
* \ingroup IntensityImageFilters Multithreaded
*/
template<class TInputImage,
class TMaskImage=Image<unsigned char,::itk::GetImageDimension<TInputImage>::ImageDimension>,
class TOutputImage=TInputImage>
class ITK_EXPORT KappaSigmaThresholdImageFilter :
public ImageToImageFilter<TInputImage, TOutputImage>
{
public:
/** Standard Self typedef */
typedef KappaSigmaThresholdImageFilter Self;
typedef ImageToImageFilter<TInputImage,TOutputImage> Superclass;
typedef SmartPointer<Self> Pointer;
typedef SmartPointer<const Self> ConstPointer;
/** Method for creation through the object factory. */
itkNewMacro(Self);
/** Runtime information support. */
itkTypeMacro(KappaSigmaThresholdImageFilter, ImageToImageFilter);
/** Standard image type within this class. */
typedef TInputImage InputImageType;
typedef TMaskImage MaskImageType;
/** Image pixel value typedef. */
typedef typename TInputImage::PixelType InputPixelType;
typedef typename TOutputImage::PixelType OutputPixelType;
typedef typename TMaskImage::PixelType MaskPixelType;
/** Image related typedefs. */
typedef typename TInputImage::Pointer InputImagePointer;
typedef typename TOutputImage::Pointer OutputImagePointer;
typedef typename TMaskImage::Pointer MaskImagePointer;
/** Set the "outside" pixel value. The default value
* NumericTraits<OutputPixelType>::Zero. */
itkSetMacro(OutsideValue,OutputPixelType);
/** Get the "outside" pixel value. */
itkGetConstMacro(OutsideValue,OutputPixelType);
/** Set the "inside" pixel value. The default value
* NumericTraits<OutputPixelType>::max() */
itkSetMacro(InsideValue,OutputPixelType);
/** Get the "inside" pixel value. */
itkGetConstMacro(InsideValue,OutputPixelType);
/** Get the computed threshold. */
itkGetConstMacro(Threshold,InputPixelType);
itkSetMacro(MaskValue, MaskPixelType);
itkGetConstMacro(MaskValue, MaskPixelType);
itkSetMacro(SigmaFactor, double);
itkGetConstMacro(SigmaFactor, double);
itkSetMacro(NumberOfIterations, unsigned int);
itkGetConstMacro(NumberOfIterations, unsigned int);
#ifdef ITK_USE_CONCEPT_CHECKING
/** Begin concept checking */
itkConceptMacro(OutputComparableCheck,
(Concept::Comparable<OutputPixelType>));
itkConceptMacro(OutputOStreamWritableCheck,
(Concept::OStreamWritable<OutputPixelType>));
/** End concept checking */
#endif
/** Set the mask image */
void SetMaskImage(const MaskImageType *input)
{
// Process object is not const-correct so the const casting is required.
this->SetNthInput( 1, const_cast<MaskImageType *>(input) );
}
/** Get the mask image */
const MaskImageType * GetMaskImage() const
{
return static_cast<MaskImageType*>(const_cast<DataObject *>(this->ProcessObject::GetInput(1)));
}
/** Set the input image */
void SetInput1(const TInputImage *input)
{
this->SetInput( input );
}
/** Set the marker image */
void SetInput2(const MaskImageType *input)
{
this->SetMaskImage( input );
}
protected:
KappaSigmaThresholdImageFilter();
~KappaSigmaThresholdImageFilter(){};
void PrintSelf(std::ostream& os, Indent indent) const;
void GenerateInputRequestedRegion();
void GenerateData ();
typedef typename TInputImage::SizeType InputSizeType;
typedef typename TInputImage::IndexType InputIndexType;
typedef typename TInputImage::RegionType InputImageRegionType;
typedef typename TOutputImage::SizeType OutputSizeType;
typedef typename TOutputImage::IndexType OutputIndexType;
typedef typename TOutputImage::RegionType OutputImageRegionType;
typedef KappaSigmaThresholdImageCalculator< TInputImage, TMaskImage > CalculatorType;
/** Image related typedefs. */
itkStaticConstMacro(InputImageDimension, unsigned int,
TInputImage::ImageDimension );
itkStaticConstMacro(OutputImageDimension, unsigned int,
TOutputImage::ImageDimension );
private:
KappaSigmaThresholdImageFilter(const Self&); //purposely not implemented
void operator=(const Self&); //purposely not implemented
MaskPixelType m_MaskValue;
double m_SigmaFactor;
unsigned int m_NumberOfIterations;
InputPixelType m_Threshold;
OutputPixelType m_InsideValue;
OutputPixelType m_OutsideValue;
}; // end of class
} // end namespace itk
#ifndef ITK_MANUAL_INSTANTIATION
#include "itkKappaSigmaThresholdImageFilter.txx"
#endif
#endif
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