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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 itkSimilarityIndexImageFilter_h
#define itkSimilarityIndexImageFilter_h
#include "itkImageToImageFilter.h"
#include "itkNumericTraits.h"
#include "itkArray.h"
namespace itk
{
/** \class SimilarityIndexImageFilter
* \brief Measures the similarity between the set of non-zero pixels of
* two images.
*
* SimilarityIndexImageFilter measures the similarity between the set
* non-zero pixels of two images using the following formula:
* \f[ S = \frac{2 | A \cap B |}{|A| + |B|} \f]
* where \f$A\f$ and \f$B\f$ are respectively the set of non-zero pixels
* in the first and second input images. Operator \f$|\cdot|\f$ represents
* the size of a set and \f$\cap\f$ represents the intersection of two sets.
*
* The measure is derived from a reliability measure known as the kappa
* statistic. \f$S\f$ is sensitive to both differences in size and in
* location and have been in the literature for comparing two segmentation masks.
* For more information see:
* "Morphometric Analysis of White Matter Lesions in MR Images: Method and
* Validation", A. P. Zijdenbos, B. M. Dawant, R. A. Margolin and
* A. C. Palmer, IEEE Trans. on Medical Imaging, 13(4) pp 716-724,1994
*
*
* This filter requires the largest possible region of the first image
* and the same corresponding region in the second image.
* It behaves as filter with
* two input and one output. Thus it can be inserted in a pipeline with
* other filters. The filter passes the first input through unmodified.
*
* This filter is templated over the two input image type. It assume
* both image have the same number of dimensions.
*
* \ingroup MultiThreaded
* \ingroup ITKImageCompare
*/
template< typename TInputImage1, typename TInputImage2 >
class ITK_TEMPLATE_EXPORT SimilarityIndexImageFilter:
public ImageToImageFilter< TInputImage1, TInputImage1 >
{
public:
/** Standard Self typedef */
typedef SimilarityIndexImageFilter Self;
typedef ImageToImageFilter< TInputImage1, TInputImage1 > Superclass;
typedef SmartPointer< Self > Pointer;
typedef SmartPointer< const Self > ConstPointer;
/** Method for creation through the object factory. */
itkNewMacro(Self);
/** Runtime information support. */
itkTypeMacro(SimilarityIndexImageFilter, ImageToImageFilter);
/** Image related typedefs. */
typedef TInputImage1 InputImage1Type;
typedef TInputImage2 InputImage2Type;
typedef typename TInputImage1::Pointer InputImage1Pointer;
typedef typename TInputImage2::Pointer InputImage2Pointer;
typedef typename TInputImage1::ConstPointer InputImage1ConstPointer;
typedef typename TInputImage2::ConstPointer InputImage2ConstPointer;
typedef typename TInputImage1::RegionType RegionType;
typedef typename TInputImage1::SizeType SizeType;
typedef typename TInputImage1::IndexType IndexType;
typedef typename TInputImage1::PixelType InputImage1PixelType;
typedef typename TInputImage2::PixelType InputImage2PixelType;
/** Image related typedefs. */
itkStaticConstMacro(ImageDimension, unsigned int,
TInputImage1::ImageDimension);
/** Type to use form computations. */
typedef typename NumericTraits< InputImage1PixelType >::RealType RealType;
/** Set the first input. */
void SetInput1(const InputImage1Type *image)
{ this->SetInput(image); }
/** Set the second input. */
void SetInput2(const InputImage2Type *image);
/** Get the first input. */
const InputImage1Type * GetInput1(void)
{ return this->GetInput(); }
/** Get the secong input. */
const InputImage2Type * GetInput2();
/** Return the computed similarity index. */
itkGetConstMacro(SimilarityIndex, RealType);
#ifdef ITK_USE_CONCEPT_CHECKING
// Begin concept checking
itkConceptMacro( Input1HasNumericTraitsCheck,
( Concept::HasNumericTraits< InputImage1PixelType > ) );
itkConceptMacro( Input2HasNumericTraitsCheck,
( Concept::HasNumericTraits< InputImage2PixelType > ) );
// End concept checking
#endif
protected:
SimilarityIndexImageFilter();
~SimilarityIndexImageFilter() ITK_OVERRIDE {}
void PrintSelf(std::ostream & os, Indent indent) const ITK_OVERRIDE;
/** Pass the input through unmodified. Do this by Grafting in the
* AllocateOutputs method. */
void AllocateOutputs() ITK_OVERRIDE;
/** Initialize some accumulators before the threads run. */
void BeforeThreadedGenerateData() ITK_OVERRIDE;
/** Do final mean and variance computation from data accumulated in threads.
*/
void AfterThreadedGenerateData() ITK_OVERRIDE;
/** Multi-thread version GenerateData. */
void ThreadedGenerateData(const RegionType &
outputRegionForThread,
ThreadIdType threadId) ITK_OVERRIDE;
// Override since the filter needs all the data for the algorithm
void GenerateInputRequestedRegion() ITK_OVERRIDE;
// Override since the filter produces all of its output
void EnlargeOutputRequestedRegion(DataObject *data) ITK_OVERRIDE;
private:
ITK_DISALLOW_COPY_AND_ASSIGN(SimilarityIndexImageFilter);
RealType m_SimilarityIndex;
Array< SizeValueType > m_CountOfImage1;
Array< SizeValueType > m_CountOfImage2;
Array< SizeValueType > m_CountOfIntersection;
}; // end of class
} // end namespace itk
#ifndef ITK_MANUAL_INSTANTIATION
#include "itkSimilarityIndexImageFilter.hxx"
#endif
#endif
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