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/*=========================================================================
Program: Insight Segmentation & Registration Toolkit
Module: $RCSfile: itkBalloonForceFilter.h,v $
Language: C++
Date: $Date: 2007-04-05 17:56:57 $
Version: $Revision: 1.38 $
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 __itkBalloonForceFilter_h
#define __itkBalloonForceFilter_h
#include "itkMeshToMeshFilter.h"
#include "vnl/vnl_matrix_fixed.h"
#include "vnl/vnl_math.h"
#include "itkMesh.h"
#include "itkVector.h"
#include "itkTriangleCell.h"
#include "itkImage.h"
#include "itkImageRegionIterator.h"
#include <itkCovariantVector.h>
namespace itk
{
/** \class BalloonForceFilter
* \brief
*
* BalloonForceFilter is used to apply balloon force and the potential
* force onto the 2D deformable model. For 3D (multi-slices) segmentation
* please use BalloonForce3DFilter
* The balloon force is vertical to the surface of the model. The potential
* force is given out by the estimated boundary points. These two will meet
* a balance at the boundary, thus the deformable model will fit to the
* boundary.
* Users should use deformable model as input using SetInput and also provide
* the filter with a potential image which will provide the estimated bounday.
* The image should be a binary image with object and background labelled
* differently. These image can be given by GibbsPriorFilter or any other
* segmentation filters.
* When the nodes on the model stopped at the estimated boundary, using the
* GradientFit method to fit the model using the gradient information in the
* original image.
*
* \ingroup MeshFilters
* \ingroup MeshSegmentation
*/
template <class TInputMesh, class TOutputMesh>
class ITK_EXPORT BalloonForceFilter : public MeshToMeshFilter<TInputMesh, TOutputMesh>
{
public:
/** Standard class typedefs. */
typedef BalloonForceFilter Self;
typedef MeshToMeshFilter<TInputMesh, TOutputMesh> Superclass;
typedef SmartPointer<Self> Pointer;
typedef SmartPointer<const Self> ConstPointer;
/** Method for creation through the object factory. */
itkNewMacro(Self);
/** Run-time type information (and related methods). */
itkTypeMacro(BalloonForceFilter,MeshToMeshFilter);
/** Some typedefs for the input and output types. */
typedef TInputMesh InputMeshType;
typedef TOutputMesh OutputMeshType;
/** Typedefs for containers and their iterators. */
typedef typename InputMeshType::PointsContainerPointer
InputPointsContainerPointer;
typedef typename InputMeshType::PointsContainer::Iterator
InputPointsContainerIterator;
typedef typename InputMeshType::PointDataContainerPointer
InputPointDataContainerPointer;
typedef typename InputMeshType::PointDataContainer::Iterator
InputPointDataContainerIterator;
typedef typename InputMeshType::CellsContainerPointer
InputCellsContainerPointer;
typedef typename InputMeshType::CellsContainer::Iterator
InputCellsContainerIterator;
typedef typename InputMeshType::CellDataContainerPointer
InputCellDataContainerPointer;
typedef typename InputMeshType::CellDataContainer::Iterator
InputCellDataContainerIterator;
typedef typename OutputMeshType::PointsContainerPointer
OutputPointsContainerPointer;
typedef typename OutputMeshType::PointsContainer::Iterator
OutputPointsContainerIterator;
/** Image types. */
typedef typename InputMeshType::PointType IPixelType;
typedef typename InputMeshType::PixelType PixelType;
typedef Image<unsigned short, 2> ImageType;
typedef CovariantVector<PixelType, 2> GradientType;
typedef Image<GradientType, 2> GradientImageType;
typedef typename InputMeshType::Pointer InputMeshPointer;
typedef typename OutputMeshType::Pointer OutputMeshPointer;
typedef typename ImageType::Pointer ImagePointer;
typedef typename ImageType::IndexType IndexType;
typedef typename GradientImageType::Pointer GradientImagePointer;
typedef typename GradientImageType::IndexType GradientIndexType;
typedef ImageRegionIterator<ImageType> ImageIterator;
typedef Vector<float, 3> FloatVector;
typedef Vector<int, 3> IntVector;
typedef Vector<double, 2> Double2Vector;
typedef Vector<int, 2> Int2Vector;
/** Cell related types. */
typedef typename InputMeshType::CellType CellType;
typedef typename InputMeshType::CellTraits CellTraits;
typedef CellInterface<PixelType, CellTraits> CellInterface;
typedef TriangleCell< CellInterface > TriCell;
/** Some functions. */
void ComputeForce();
void Initialize();
void SetStiffnessMatrix();
void Advance(); // update data for next iteration
void Reset(); // reset all data
void ComputeDt(); // compute point positions
void ComputeOutput();
void NodeAddition(int i, int res, IPixelType z); // (folowing 3) for adding new nodes, now disabled for further tests
void NodesRearrange();
void GapSearch();
void GradientFit(); // fit the model with gradient information
void ComputeNormals();
void ACDSearch(); // remove weird structures on the model surface
/** Set the output image. */
itkSetMacro(ImageOutput, ImagePointer);
itkGetMacro(ImageOutput, ImagePointer);
itkSetMacro(Gradient, GradientImagePointer);
/** Set/Get information for the algorithm. */
itkSetMacro(Stiffness, Double2Vector);
itkSetMacro(TimeStep, double);
itkSetMacro(GradientBegin, int);
itkSetMacro(Resolution, int);
itkSetMacro(Center, IndexType);
itkGetMacro(Normals, InputMeshPointer);
itkSetMacro(DistanceForGradient, float);
itkSetMacro(DistanceToStop, float);
itkSetMacro(Potential, ImagePointer);
itkGetMacro(Locations, InputMeshPointer);
itkGetMacro(Displacements, InputMeshPointer);
itkGetMacro(Derives, InputMeshPointer);
itkGetMacro(Forces, InputMeshPointer);
protected:
BalloonForceFilter();
~BalloonForceFilter();
void PrintSelf(std::ostream& os, Indent indent) const;
virtual void GenerateData();
private:
BalloonForceFilter(const Self&); //purposely not implemented
void operator=(const Self&); //purposely not implemented
/** These meshes are defined to hold the vectors as force, etc. */
InputMeshPointer m_Forces;
InputMeshPointer m_Normals;
InputMeshPointer m_Displacements;
InputMeshPointer m_Derives;
InputMeshPointer m_Locations;
InputMeshPointer m_Input;
OutputMeshPointer m_Output;
/** Three different kinds of stiffness matrix. */
vnl_matrix_fixed<double, 4, 4> m_NStiffness;
vnl_matrix_fixed<double, 4, 4> m_SStiffness;
vnl_matrix_fixed<double, 4, 4> m_CStiffness;
vnl_matrix_fixed<double, 4, 4> **m_K;
Double2Vector m_Stiffness;
double m_TimeStep; // the time step of each iteration
int m_Resolution;
IndexType m_Center;
float m_MiniT; // variabel help to stop the model when near potential estimation
int m_Step; // the number of iteration
unsigned int m_NumberOfNodes;
unsigned int m_NumberOfCells;
unsigned int m_NumNewNodes; // for adding new nodes, now disabled for further tests
int *m_GapLocations;
float **m_NewNodes;
int m_NewNodesExisted;
unsigned int m_NewNodeLimit;
unsigned int m_ImageWidth; // input image size
unsigned int m_ImageHeight;
unsigned int m_ImageDepth;
int m_ModelXUpLimit; // the following 4 variables record the size of the model
int m_ModelXDownLimit;
int m_ModelYUpLimit;
int m_ModelYDownLimit;
int **m_ACD; // help to remove the weird structure on the model surface
int m_ModelRestart;
int m_GradientBegin;
Int2Vector m_StepThreshold; // the threshold decide when to transfer from potential fit to gradient fit
// and the threshold decide when to stop the model
float m_DistanceToBoundary;
float m_DistanceToStop;
float m_DistanceForGradient;
ImagePointer m_Potential; // for calculate of image force from potential
GradientImagePointer m_Gradient; // for calculate of image force from gradient
// for Gibbs Prior Model parameters' recalculation
ImagePointer m_ImageOutput;
unsigned short m_ObjectLabel;
typedef ImageType::SizeType ImageSizeType;
};
} // end namespace itk
#ifndef ITK_MANUAL_INSTANTIATION
#include "itkBalloonForceFilter.txx"
#endif
#endif
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