itk::bio::CellularAggregate< NSpaceDimension > Class Template Reference

This class represent an aggregation of bio::Cell objects This class is the base for different types of cellular groups including bacterial colonies and pluricellular organisms. More...

#include <itkBioCellularAggregate.h>

Inheritance diagram for itk::bio::CellularAggregate< NSpaceDimension >:

[legend]Collaboration diagram for itk::bio::CellularAggregate< NSpaceDimension >:

[legend]List of all members.

Public Types
typedef CellularAggregate	Self
typedef CellularAggregateBase	Superclass
typedef itk::SmartPointer< Self >	Pointer
typedef itk::SmartPointer< const Self >	ConstPointer
typedef Cell< NSpaceDimension >	BioCellType
typedef BioCellType *	PointPixelType
typedef double	CellPixelType
typedef itk::DefaultDynamicMeshTraits< PointPixelType, NSpaceDimension, NSpaceDimension, double, double, CellPixelType >	MeshTraits
typedef itk::Mesh< PointPixelType, NSpaceDimension, MeshTraits >	MeshType
typedef MeshType::Pointer	MeshPointer
typedef MeshType::ConstPointer	MeshConstPointer
typedef MeshType::PointType	PointType
typedef BioCellType::VectorType	VectorType
typedef MeshType::PointsContainer	PointsContainer
typedef MeshType::PointDataContainer	PointDataContainer
typedef MeshType::CellsContainer	VoronoiRegionsContainer
typedef PointsContainer::Iterator	PointsIterator
typedef PointDataContainer::Iterator	CellsIterator
typedef VoronoiRegionsContainer::Iterator	VoronoiIterator
typedef PointsContainer::ConstIterator	PointsConstIterator
typedef PointDataContainer::ConstIterator	CellsConstIterator
typedef VoronoiRegionsContainer::ConstIterator	VoronoiConstIterator
typedef MeshType::PointIdentifier	IdentifierType
typedef MeshType::CellAutoPointer	CellAutoPointer
typedef itk::CellInterface< typename MeshType::CellPixelType, typename MeshType::CellTraits >	CellInterfaceType
typedef itk::PolygonCell< CellInterfaceType >	VoronoiRegionType
typedef VoronoiRegionType::SelfAutoPointer	VoronoiRegionAutoPointer
typedef float	ImagePixelType
typedef itk::Image< ImagePixelType, NSpaceDimension >	SubstrateType
typedef SubstrateType::Pointer	SubstratePointer
typedef ImagePixelType	SubstrateValueType
typedef std::vector< SubstratePointer >	SubstratesVector
Public Member Functions
virtual const char *	GetNameOfClass () const
	itkStaticConstMacro (SpaceDimension, unsigned int, NSpaceDimension)
unsigned int	GetNumberOfCells (void) const
void	SetGrowthRadiusLimit (double value)
void	SetGrowthRadiusIncrement (double value)
virtual MeshType *	GetMesh ()
virtual const MeshType *	GetMesh ()
virtual void	AdvanceTimeStep (void)
virtual void	SetEgg (BioCellType *cell, const PointType &position)
virtual void	Add (CellBase *cell)
virtual void	Add (CellBase *cell, const VectorType &perturbation)
virtual void	Add (CellBase *cellA, CellBase *cellB, double perturbationLength)
virtual void	Remove (CellBase *cell)
virtual void	GetVoronoi (unsigned long int cellId, VoronoiRegionAutoPointer &) const
void	DumpContent (std::ostream &os) const
virtual void	AddSubstrate (SubstrateType *substrate)
virtual SubstratesVector &	GetSubstrates (void)
virtual SubstrateValueType	GetSubstrateValue (unsigned long int cellId, unsigned int substrateId) const
virtual void	KillAll (void)
Static Public Member Functions
Pointer	New ()
unsigned int	GetDimension ()
Protected Member Functions
	CellularAggregate ()
virtual	~CellularAggregate ()
	CellularAggregate (const Self &)
void	operator= (const Self &)
void	PrintSelf (std::ostream &os, itk::Indent indent) const
virtual void	ComputeForces (void)
virtual void	UpdatePositions (void)
virtual void	ComputeClosestPoints (void)
virtual void	ClearForces (void)

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Detailed Description

template<unsigned int NSpaceDimension = 3>
class itk::bio::CellularAggregate< NSpaceDimension >

This class represent an aggregation of bio::Cell objects This class is the base for different types of cellular groups including bacterial colonies and pluricellular organisms.

Definition at line 43 of file itkBioCellularAggregate.h.

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Member Typedef Documentation

template<unsigned int NSpaceDimension = 3> typedef Cell<NSpaceDimension> itk::bio::CellularAggregate< NSpaceDimension >::BioCellType

Definition at line 61 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef MeshType::CellAutoPointer itk::bio::CellularAggregate< NSpaceDimension >::CellAutoPointer

Definition at line 98 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef itk::CellInterface< typename MeshType::CellPixelType, typename MeshType::CellTraits > itk::bio::CellularAggregate< NSpaceDimension >::CellInterfaceType

Voronoi region around a bio::Cell Definition at line 103 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef double itk::bio::CellularAggregate< NSpaceDimension >::CellPixelType

Definition at line 63 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef PointDataContainer::ConstIterator itk::bio::CellularAggregate< NSpaceDimension >::CellsConstIterator

Definition at line 95 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef PointDataContainer::Iterator itk::bio::CellularAggregate< NSpaceDimension >::CellsIterator

Definition at line 92 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef itk::SmartPointer<const Self> itk::bio::CellularAggregate< NSpaceDimension >::ConstPointer

Reimplemented from itk::bio::CellularAggregateBase. Definition at line 50 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef MeshType::PointIdentifier itk::bio::CellularAggregate< NSpaceDimension >::IdentifierType

Definition at line 97 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef float itk::bio::CellularAggregate< NSpaceDimension >::ImagePixelType

Convenient typedefs. Reimplemented from itk::bio::CellularAggregateBase. Definition at line 108 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef MeshType::ConstPointer itk::bio::CellularAggregate< NSpaceDimension >::MeshConstPointer

Definition at line 83 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef MeshType::Pointer itk::bio::CellularAggregate< NSpaceDimension >::MeshPointer

Mesh Associated types Definition at line 82 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef itk::DefaultDynamicMeshTraits< PointPixelType, NSpaceDimension, NSpaceDimension, double, double, CellPixelType > itk::bio::CellularAggregate< NSpaceDimension >::MeshTraits

Mesh Traits Definition at line 74 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef itk::Mesh< PointPixelType, NSpaceDimension, MeshTraits > itk::bio::CellularAggregate< NSpaceDimension >::MeshType

Mesh Traits Definition at line 79 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef MeshType::PointDataContainer itk::bio::CellularAggregate< NSpaceDimension >::PointDataContainer

Definition at line 89 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef itk::SmartPointer<Self> itk::bio::CellularAggregate< NSpaceDimension >::Pointer

Reimplemented from itk::bio::CellularAggregateBase. Definition at line 49 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef BioCellType* itk::bio::CellularAggregate< NSpaceDimension >::PointPixelType

Definition at line 62 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef PointsContainer::ConstIterator itk::bio::CellularAggregate< NSpaceDimension >::PointsConstIterator

Definition at line 94 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef MeshType::PointsContainer itk::bio::CellularAggregate< NSpaceDimension >::PointsContainer

Definition at line 88 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef PointsContainer::Iterator itk::bio::CellularAggregate< NSpaceDimension >::PointsIterator

Definition at line 91 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef MeshType::PointType itk::bio::CellularAggregate< NSpaceDimension >::PointType

Definition at line 84 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef CellularAggregate itk::bio::CellularAggregate< NSpaceDimension >::Self

Standard class typedefs. Reimplemented from itk::bio::CellularAggregateBase. Definition at line 47 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef SubstrateType::Pointer itk::bio::CellularAggregate< NSpaceDimension >::SubstratePointer

Definition at line 110 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef std::vector< SubstratePointer > itk::bio::CellularAggregate< NSpaceDimension >::SubstratesVector

Definition at line 112 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef itk::Image<ImagePixelType, NSpaceDimension > itk::bio::CellularAggregate< NSpaceDimension >::SubstrateType

Definition at line 109 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef ImagePixelType itk::bio::CellularAggregate< NSpaceDimension >::SubstrateValueType

Reimplemented from itk::bio::CellularAggregateBase. Definition at line 111 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef CellularAggregateBase itk::bio::CellularAggregate< NSpaceDimension >::Superclass

Reimplemented from itk::bio::CellularAggregateBase. Definition at line 48 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef BioCellType::VectorType itk::bio::CellularAggregate< NSpaceDimension >::VectorType

Definition at line 85 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef VoronoiRegionsContainer::ConstIterator itk::bio::CellularAggregate< NSpaceDimension >::VoronoiConstIterator

Definition at line 96 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef VoronoiRegionsContainer::Iterator itk::bio::CellularAggregate< NSpaceDimension >::VoronoiIterator

Definition at line 93 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef VoronoiRegionType::SelfAutoPointer itk::bio::CellularAggregate< NSpaceDimension >::VoronoiRegionAutoPointer

Definition at line 105 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef MeshType::CellsContainer itk::bio::CellularAggregate< NSpaceDimension >::VoronoiRegionsContainer

Definition at line 90 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> typedef itk::PolygonCell< CellInterfaceType > itk::bio::CellularAggregate< NSpaceDimension >::VoronoiRegionType

Definition at line 104 of file itkBioCellularAggregate.h.

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Constructor & Destructor Documentation

template<unsigned int NSpaceDimension = 3> itk::bio::CellularAggregate< NSpaceDimension >::CellularAggregate (   )  [protected]

template<unsigned int NSpaceDimension = 3> virtual itk::bio::CellularAggregate< NSpaceDimension >::~CellularAggregate (   )  [protected, virtual]

template<unsigned int NSpaceDimension = 3> itk::bio::CellularAggregate< NSpaceDimension >::CellularAggregate (  const Self &   )  [protected]

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Member Function Documentation

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::Add (  CellBase *  cellA, CellBase *  cellB, double  perturbationLength )  [virtual]

Reimplemented from itk::bio::CellularAggregateBase.

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::Add (  CellBase *  cell, const VectorType &  perturbation )  [virtual]

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::Add (  CellBase *  cell  )  [virtual]

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::AddSubstrate (  SubstrateType *  substrate  )  [virtual]

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::AdvanceTimeStep (  void   )  [virtual]

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::ClearForces (  void   )  [protected, virtual]

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::ComputeClosestPoints (  void   )  [protected, virtual]

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::ComputeForces (  void   )  [protected, virtual]

template<unsigned int NSpaceDimension = 3> void itk::bio::CellularAggregate< NSpaceDimension >::DumpContent (  std::ostream &  os  )  const

template<unsigned int NSpaceDimension = 3> unsigned int itk::bio::CellularAggregate< NSpaceDimension >::GetDimension (   )  [inline, static]

Definition at line 117 of file itkBioCellularAggregate.h.

template<unsigned int NSpaceDimension = 3> virtual const MeshType* itk::bio::CellularAggregate< NSpaceDimension >::GetMesh (   )  [virtual]

template<unsigned int NSpaceDimension = 3> virtual MeshType* itk::bio::CellularAggregate< NSpaceDimension >::GetMesh (   )  [virtual]

template<unsigned int NSpaceDimension = 3> virtual const char* itk::bio::CellularAggregate< NSpaceDimension >::GetNameOfClass (   )  const [virtual]

Standard part of all itk objects. Reimplemented from itk::bio::CellularAggregateBase.

template<unsigned int NSpaceDimension = 3> unsigned int itk::bio::CellularAggregate< NSpaceDimension >::GetNumberOfCells (  void   )  const

template<unsigned int NSpaceDimension = 3> virtual SubstratesVector& itk::bio::CellularAggregate< NSpaceDimension >::GetSubstrates (  void   )  [virtual]

template<unsigned int NSpaceDimension = 3> virtual SubstrateValueType itk::bio::CellularAggregate< NSpaceDimension >::GetSubstrateValue (  unsigned long int  cellId, unsigned int  substrateId )  const [virtual]

Reimplemented from itk::bio::CellularAggregateBase.

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::GetVoronoi (  unsigned long int  cellId, VoronoiRegionAutoPointer &  )  const [virtual]

template<unsigned int NSpaceDimension = 3> itk::bio::CellularAggregate< NSpaceDimension >::itkStaticConstMacro (  SpaceDimension  , unsigned  int, NSpaceDimension  )

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::KillAll (  void   )  [virtual]

template<unsigned int NSpaceDimension = 3> Pointer itk::bio::CellularAggregate< NSpaceDimension >::New (   )  [static]

Method for creation through the object factory. Reimplemented from itk::bio::CellularAggregateBase.

template<unsigned int NSpaceDimension = 3> void itk::bio::CellularAggregate< NSpaceDimension >::operator= (  const Self &   )  [protected]

Reimplemented from itk::Object.

template<unsigned int NSpaceDimension = 3> void itk::bio::CellularAggregate< NSpaceDimension >::PrintSelf (  std::ostream &  os, itk::Indent  indent )  const [protected, virtual]

Methods invoked by Print() to print information about the object including superclasses. Typically not called by the user (use Print() instead) but used in the hierarchical print process to combine the output of several classes. Reimplemented from itk::bio::CellularAggregateBase.

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::Remove (  CellBase *  cell  )  [virtual]

Reimplemented from itk::bio::CellularAggregateBase.

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::SetEgg (  BioCellType *  cell, const PointType &  position )  [virtual]

template<unsigned int NSpaceDimension = 3> void itk::bio::CellularAggregate< NSpaceDimension >::SetGrowthRadiusIncrement (  double  value  )

template<unsigned int NSpaceDimension = 3> void itk::bio::CellularAggregate< NSpaceDimension >::SetGrowthRadiusLimit (  double  value  )

template<unsigned int NSpaceDimension = 3> virtual void itk::bio::CellularAggregate< NSpaceDimension >::UpdatePositions (  void   )  [protected, virtual]

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The documentation for this class was generated from the following file:

• itkBioCellularAggregate.h

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