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/*========================================================================= |
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Program: Insight Segmentation & Registration Toolkit |
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Module: $RCSfile: itkBloxCoreAtomPixel.h.html,v $ |
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Language: C++ |
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Date: $Date: 2006/01/17 19:15:33 $ |
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Version: $Revision: 1.4 $ |
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Copyright (c) Insight Software Consortium. All rights reserved. |
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See ITKCopyright.txt or http://www.itk.org/HTML/Copyright.htm for details. |
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This software is distributed WITHOUT ANY WARRANTY; without even |
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the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR |
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PURPOSE. See the above copyright notices for more information. |
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=========================================================================*/ |
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#ifndef __itkBloxCoreAtomPixel_h |
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#define __itkBloxCoreAtomPixel_h |
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#include "vnl/vnl_matrix_fixed.h" |
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#include "vnl/vnl_vector_fixed.h" |
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#include "vnl/algo/vnl_generalized_eigensystem.h" |
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#include "itkObject.h" |
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#include "itkBloxCoreAtomItem.h" |
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#include "itkBloxBoundaryPointItem.h" |
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#include "itkPoint.h" |
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#include "itkCovariantVector.h" |
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#include "itkBloxPixel.h" |
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namespace itk |
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{ |
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/** |
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* \class BloxCoreAtomPixel |
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* \brief Holds a linked list of itk::BloxCoreAtomItem's |
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* |
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* \ingroup ImageObjects |
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* */ |
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template <unsigned int NDimensions> |
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class ITK_EXPORT BloxCoreAtomPixel : public BloxPixel< BloxCoreAtomItem<NDimensions> > |
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{ |
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public: |
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/** Standard class typedefs. */ |
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typedef BloxCoreAtomPixel Self; |
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typedef BloxPixel< BloxCoreAtomItem<NDimensions> > Superclass; |
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typedef SmartPointer<Self> Pointer; |
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typedef SmartPointer<const Self> ConstPointer; |
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/** The type of core atom item we process. */ |
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typedef BloxCoreAtomItem<NDimensions> CoreAtomItemType; |
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/** The type of boundary point item we process. */ |
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typedef BloxBoundaryPointItem<NDimensions> BPItemType; |
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/** The type used to store the position of the BoundaryPointItem. */ |
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typedef Point<double, NDimensions> PositionType; |
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/** The type of vector used to store the gradient of the BoundaryPointItem. */ |
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typedef CovariantVector<double, NDimensions> GradientType; |
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/** VNL type used in eigenanalysis. */ |
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typedef vnl_vector_fixed<double, NDimensions> VectorType; |
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/** Vector type used to store eigenvalues. */ |
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typedef vnl_vector_fixed<double, NDimensions> EigenvalueType; |
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/** Matrix type used to store eigenvectors. */ |
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typedef vnl_matrix_fixed<double, NDimensions, NDimensions> EigenvectorType; |
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/** Generalized matrix type used for several different tasks*/ |
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typedef vnl_matrix_fixed<double, NDimensions, NDimensions> MatrixType; |
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/** Calculate and store the mean of core atom diameters. */ |
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double CalcMeanCoreAtomDiameter(); |
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/** Perform eigenanalysis on the population of core atoms stored in this pixel. */ |
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bool DoCoreAtomEigenanalysis(); |
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/** Perform eigenanalysis on the voted CMatrix */ |
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void DoVotedEigenanalysis(); |
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/** Get statements */ |
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double GetMeanCoreAtomDiameter() {return m_MeanCoreAtomDiameter;} |
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double GetMeanCoreAtomIntensity() {return m_MeanCoreAtomIntensity;} |
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EigenvalueType GetEigenvalues() {return m_Eigenvalues;} |
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EigenvalueType GetVotedEigenvalues() {return m_VotedEigenvalues;} |
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EigenvectorType GetEigenvectors() {return m_Eigenvectors;} |
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EigenvectorType GetVotedEigenvectors() {return m_VotedEigenvectors;} |
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PositionType GetLocationSums() {return m_LocationSums;} |
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double GetWeightSum() {return m_WeightSum;} |
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/** Get the raw CMatrix (prior to voting) */ |
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MatrixType* GetRawCMatrixPointer() {return &m_RawCMatrix;} |
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/** Collect a vote and update m_VotedCMatrix */ |
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void CollectVote(MatrixType* pMatrix, double strength, double count); |
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/** Re-normalizes the voted CMatrix after all votes are cast */ |
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void NormalizeVotedCMatrix(); |
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/** Calculate location of the pixel based on core atoms voting for it*/ |
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void CalcWeightedCoreAtomLocation(double weight_factor, Self * votingPixel); |
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/** Calculate mean intensity os the pixel based on its core atoms*/ |
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void CalcMeanCoreAtomIntensity(); |
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/** Returns the calculated voted location*/ |
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PositionType GetVotedLocation(); |
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BloxCoreAtomPixel(); |
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~BloxCoreAtomPixel(); |
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private: |
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/** Average (arithmetic mean) of core atom diameters stored in this pixel. */ |
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double m_MeanCoreAtomDiameter; |
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/** The raw CMatrix - this is the matrix that we do eigen analysis on. */ |
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MatrixType m_RawCMatrix; |
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/** The eigenvalues of the core atom population in this pixel |
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* These are stored in increasing order of value (not absolute value) from |
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* indices 0 to n, where n is the number of dimensions in the source image */ |
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EigenvalueType m_Eigenvalues; |
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/** The eigenvectors of the core atom population in this pixel |
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* Each eigenvector is a column of this matrix */ |
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EigenvectorType m_Eigenvectors; |
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/** The CMatrix that collects votes cast by other blox. */ |
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MatrixType m_VotedCMatrix; |
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/** Same as above, but calculated from the voted CMatrix */ |
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EigenvalueType m_VotedEigenvalues; |
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/** Same as above, but calculated from the voted CMatrix */ |
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EigenvectorType m_VotedEigenvectors; |
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/** The number of core atoms in all of the blox's that have voted for |
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* this blox (its constituency) */ |
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double m_ConstituencySize; |
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/** Used to compute the voted location of the core atom population */ |
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PositionType m_LocationSums; |
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/** Used to compute the voted location of the core atom population */ |
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PositionType m_VotedLocation; |
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/** Total weights used to compute voted location */ |
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double m_WeightSum; |
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/** Total weights used to compute voted location */ |
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double m_MeanCoreAtomIntensity; |
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}; |
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} // end namespace itk |
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#ifndef ITK_MANUAL_INSTANTIATION |
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#include "itkBloxCoreAtomPixel.txx" |
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#endif |
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#endif |
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