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/*=========================================================================
Program: Insight Segmentation & Registration Toolkit
Copyright (c) 2002 Insight 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 _FEMConformalMap_h
#define _FEMConformalMap_h
#include <vnl/vnl_matops.h>
#include <vnl/algo/vnl_svd.h>
#include <vnl/algo/vnl_symmetric_eigensystem.h>
#include "vtkDataSetWriter.h"
#include "vtkDataSetMapper.h"
#include "vtkRenderer.h"
#include "vtkRenderWindow.h"
#include "vtkActor.h"
#include "vtkRenderWindowInteractor.h"
#include "vtkDataSetReader.h"
#include "vtkUnstructuredGrid.h"
#include "vtkDataSet.h"
#include "vtkCellArray.h"
#include "vtkVolume16Reader.h"
#include "vtkImageReader2.h"
#include "vtkPolyDataMapper.h"
#include "vtkActor.h"
#include "vtkOutlineFilter.h"
#include "vtkCamera.h"
#include "vtkProperty.h"
#include "vtkPolyData.h"
#include "vtkPolyVertex.h"
#include "vtkPointData.h"
#include "vtkExtractEdges.h"
#include "vtkPolyDataNormals.h"
#include "vtkMarchingCubes.h"
#include "vtkImageGaussianSmooth.h"
#include "vtkDecimatePro.h"
#include "vtkContourFilter.h"
#include "vtkPolyDataConnectivityFilter.h"
// #include "vtkKitwareContourFilter.h"
#include "vtkSmoothPolyDataFilter.h"
#include "vtkSTLWriter.h"
#include "vtkUnstructuredGridToPolyDataFilter.h"
// #include "itkImageToVTKImageFilter.h"
#include "vtkDelaunay2D.h"
#include "vtkFloatArray.h"
#include "itkObject.h"
#include "itkProcessObject.h"
#include "itkVectorContainer.h"
#include "itkCastImageFilter.h"
#include "itkFEM.h"
#include "itkFEMLinearSystemWrapperItpack.h"
#include "itkFEMElement3DC0LinearTriangularLaplaceBeltrami.h"
#include "itkFEMElement3DC0LinearTriangularMembrane.h"
namespace itk
{
/** \class FEMConformalMap
* Angenent, Haker conformal mapping algorithm using FEM.
*
* \note The origin of a neighborhood is always taken to be
* the first point entered into and the
* last point stored in the list.
*/
template <typename TSurface, typename TImage, unsigned int TDimension = 3>
class FEMConformalMap : public ProcessObject
{
public:
/** Standard class typedefs. */
typedef FEMConformalMap Self;
typedef ProcessObject Superclass;
typedef SmartPointer<Self> Pointer;
typedef SmartPointer<const Self> ConstPointer;
/** Run-time type information (and related methods). */
itkTypeMacro(FEMConformalMap, ProcessObject);
/** Method for creation through the object factory. */
itkNewMacro(Self);
/** Surface (mesh) types. */
typedef TImage ImageType;
typedef typename TImage::Pointer ImageTypePointer;
/** Surface (mesh) types. */
typedef TSurface SurfaceType;
typedef typename SurfaceType::Pointer SurfaceTypePointer;
typedef typename SurfaceType::PointType PointType;
typedef typename SurfaceType::CellsContainerPointer InputCellsContainerPointer;
typedef typename SurfaceType::CellsContainer::Iterator InputCellsContainerIterator;
/** Image dimension. */
// static constexpr unsigned int ImageDimension = TImage::ImageDimension;
static constexpr unsigned int ImageDimension = TDimension;
static constexpr unsigned int SurfaceDimension = TDimension;
typedef double RealType;
typedef vnl_vector<RealType> VectorType;
typedef vnl_vector_fixed<RealType, itkGetStaticConstMacro(ImageDimension)> FixedVectorType;
typedef vnl_matrix<double> MatrixType;
/** FEM types */
typedef itk::fem::MaterialLinearElasticity MaterialType;
typedef itk::fem::Node NodeType;
typedef itk::fem::LoadNode LoadType;
typedef itk::fem::Element3DC0LinearTriangularLaplaceBeltrami ElementType;
typedef itk::fem::Element3DC0LinearTriangularMembrane ElementType1;
/** Set input parameter file */
itkSetStringMacro(ParameterFileName);
/** Set input parameter file */
itkGetStringMacro(ParameterFileName);
itkGetMacro(Sigma, RealType);
itkSetMacro(Sigma, RealType);
itkGetMacro(SurfaceMesh, SurfaceTypePointer);
itkSetMacro(SurfaceMesh, SurfaceTypePointer);
itkGetMacro(Image, ImageTypePointer);
itkSetMacro(Image, ImageTypePointer);
itkGetMacro(SphereImage, ImageTypePointer);
itkSetMacro(SphereImage, ImageTypePointer);
itkSetMacro(SouthPole, int);
void
SetNorthPole(int p)
{
if (p % 2 == 0)
{
m_NorthPole = p;
m_SouthPole = p + 1;
}
else
{
m_NorthPole = p - 1;
m_SouthPole = p - 1;
}
}
void
SetDebug(bool b)
{
m_Debug = b;
}
void
SetReadFromFile(bool b)
{
m_ReadFromFile = b;
}
void
FindPoles(int dim);
void
FixPoles(int dim);
void
ConformalParameterize();
void
ConformalMap();
void
ComputeStereographicCoordinates();
void
MapStereographicCoordinatesToImage(int dim);
void
MapImageToSphere(ImageType * img, float rad);
void
MapCheckerboardToImage(float increment);
void
BuildOutputMeshes(typename TImage::Pointer image);
vtkPolyData * m_ExtractedSurfaceMesh;
vtkPolyData * m_VtkSurfaceMesh;
protected:
bool
GenerateSystemFromSurfaceMesh();
bool
GenerateSystemFromVtkSurfaceMesh();
void
ApplyRealForces(int dim);
void
ApplyImaginaryForces(int dim);
FEMConformalMap();
virtual ~FEMConformalMap(){};
private:
RealType m_Sigma;
RealType m_Pi;
std::string m_ParameterFileName;
int m_NorthPole;
int m_SouthPole;
itk::fem::Solver m_Solver;
bool m_ReadFromFile;
bool m_Debug;
bool m_FindingRealSolution;
VectorType m_RealSolution;
VectorType m_ImagSolution;
ImageTypePointer m_Image;
ImageTypePointer m_SphereImage;
SurfaceTypePointer m_SurfaceMesh;
itk::fem::LinearSystemWrapperItpack itpackWrapper;
unsigned long m_PoleElementsGN[7];
};
} // namespace itk
#ifndef ITK_MANUAL_INSTANTIATION
# include "itkFEMConformalMap.cxx"
#endif
#endif
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