itkMedialNodePairCorrespondenceProcess.h

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/*=========================================================================

  Program:   Insight Segmentation & Registration Toolkit
  Module:    $RCSfile: itkMedialNodePairCorrespondenceProcess.h,v $
  Language:  C++
  Date:      $Date: 2003/09/10 14:28:35 $
  Version:   $Revision: 1.3 $

  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 __itkMedialNodePairCorrespondenceProcess_h
#define __itkMedialNodePairCorrespondenceProcess_h

#include "itkImage.h"
#include "itkProcessObject.h"
#include "itkDataObject.h"
#include "itkBloxCoreAtomImage.h"
#include "itkBloxCoreAtomPixel.h"
#include "itkMatrixResizeableDataObject.h"
#include "itkBinaryMedialNodeMetric.h"

#include "itkPNGImageIO.h"
#include "itkImageFileWriter.h"
#include "itkRawImageIO.h"

#include "itkCorrespondenceDataStructure.h"
#include "itkSecondaryNodeList.h"
#include "itkCorrespondingList.h"
#include "itkCorrespondingMedialNodeClique.h"
#include "itkCorrespondenceDataStructureIterator.h"

namespace itk
{
  
template< typename TSourceImage >
class MedialNodePairCorrespondenceProcess : public ProcessObject
{
public:
  itkStaticConstMacro(NDimensions, unsigned int, TSourceImage::ImageDimension);

  typedef MedialNodePairCorrespondenceProcess  Self;
  typedef ProcessObject  Superclass;
  typedef SmartPointer<Self>  Pointer;
  typedef SmartPointer<const Self>  ConstPointer;

  typedef DataObject::Pointer DataObjectPointer;

  itkNewMacro(Self);

  itkTypeMacro(MedialNodePairCorrespondenceProcess, ProcessObject);

  typedef TSourceImage CoreAtomImageType;
  typedef typename CoreAtomImageType::Pointer CoreAtomImagePointer;
  typedef typename CoreAtomImageType::RegionType CoreAtomImageRegionType; 
  typedef typename CoreAtomImageType::PixelType CoreAtomImagePixelType; 
  typedef typename CoreAtomImageType::ConstPointer CoreAtomImageConstPointer;

  typedef MatrixResizeableDataObject<double> DistanceMatrixType;
  typedef typename DistanceMatrixType::Pointer DistanceMatrixPointer;

  typedef MatrixResizeableDataObject<double> CorrespondenceMatrixType;
  typedef typename CorrespondenceMatrixType::Pointer CorrespondenceMatrixPointer;

  typedef CorrespondingMedialNodeClique<itkGetStaticConstMacro(NDimensions),2> NodeType;
  typedef CorrespondenceDataStructure<NodeType,2> DataStructureType;
  typedef typename CorrespondenceDataStructure<NodeType,2>::Pointer DataStructurePointerType;
  typedef CorrespondenceDataStructureIterator<DataStructureType> IteratorType;

  typedef BinaryMedialNodeMetric<itkGetStaticConstMacro(NDimensions)> BinaryMetricType;
  typedef typename BinaryMedialNodeMetric<itkGetStaticConstMacro(NDimensions)>::Pointer BinaryMetricPointer;

  typedef BloxCoreAtomPixel<itkGetStaticConstMacro(NDimensions)> MedialNodeType;

  typedef Point<double, itkGetStaticConstMacro(NDimensions)> PositionType;

  DataStructureType * GetOutput(void);
  DataStructureType * GetOutput(unsigned int idx);

  /* This is important to note...the inputs for this process are somewhat 
     complicated, and there are a lot of them.  You need all 5 inputs for 
     this process to perform its task */

  void SetCoreAtomImageA( const CoreAtomImageType * CoreAtomImageA );

  void SetCoreAtomImageB( const CoreAtomImageType * CoreAtomImageB );

  void SetDistanceMatrixA( const DistanceMatrixType * DistanceMatrixA );

  void SetDistanceMatrixB( const DistanceMatrixType * DistanceMatrixB );

  int GetNumberOfNodePairs() {return m_NumberOfNodePairs;}  

  int GetNumberOfNodeBasePairs() {return m_NumberOfNodeBasePairs;}  

  void SetCorrespondenceMatrix( const CorrespondenceMatrixType * CorrespondenceMatrix );

  virtual void Update() {this->GenerateData();}

  virtual DataObjectPointer MakeOutput(unsigned int idx);

protected:
  MedialNodePairCorrespondenceProcess();
  virtual ~MedialNodePairCorrespondenceProcess(){} 

  void PrintSelf(std::ostream& os, Indent indent) const;

  void GenerateData();

  TSourceImage * GetCoreAtomImageA();
  TSourceImage * GetCoreAtomImageB();

  DistanceMatrixType * GetDistanceMatrixA();
  DistanceMatrixType * GetDistanceMatrixB();

  CorrespondenceMatrixType * GetCorrespondenceMatrix();

private:
  MedialNodePairCorrespondenceProcess(const Self&); //purposely not implemented
  void operator=(const Self&); //purposely not implemented

  CoreAtomImagePointer m_CoreAtomImageA;
  CoreAtomImagePointer m_CoreAtomImageB;

  DistanceMatrixPointer m_DistanceMatrixA;
  DistanceMatrixPointer m_DistanceMatrixB;

  CorrespondenceMatrixPointer m_CorrespondenceMatrix;

  DataStructurePointerType m_DataStructure;

  BinaryMetricPointer m_BinaryMetric;

  int m_Rows;
  int m_Columns;

  int m_NumberOfNodePairs;
  int m_NumberOfNodeBasePairs;

  bool m_OutputPNG;

  bool m_CreateOutputFile;
};

} // end namespace itk

#ifndef ITK_MANUAL_INSTANTIATION
#include "itkMedialNodePairCorrespondenceProcess.txx"
#endif

#endif

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