#include <CellwiseSourceEllipticPde.hpp>

Inheritance diagram for CellwiseSourceEllipticPde< DIM >:

Collaboration diagram for CellwiseSourceEllipticPde< DIM >:

Public Member Functions
	CellwiseSourceEllipticPde (AbstractCellPopulation< DIM, DIM > &rCellPopulation, double sourceCoefficient=0.0)

const AbstractCellPopulation< DIM > &	rGetCellPopulation () const

double	GetCoefficient () const

virtual double	ComputeConstantInUSourceTerm (const ChastePoint< DIM > &rX, Element< DIM, DIM > *pElement)

virtual double	ComputeLinearInUCoeffInSourceTerm (const ChastePoint< DIM > &rX, Element< DIM, DIM > *pElement)

virtual double	ComputeLinearInUCoeffInSourceTermAtNode (const Node< DIM > &rNode)

virtual c_matrix< double, DIM, DIM >	ComputeDiffusionTerm (const ChastePoint< DIM > &rX)

Public Member Functions inherited from AbstractLinearEllipticPde< DIM, DIM >
	AbstractLinearEllipticPde ()

virtual	~AbstractLinearEllipticPde ()

virtual double	ComputeConstantInUSourceTerm (const ChastePoint< SPACE_DIM > &rX, Element< ELEMENT_DIM, SPACE_DIM > *pElement)=0

virtual double	ComputeLinearInUCoeffInSourceTerm (const ChastePoint< SPACE_DIM > &rX, Element< ELEMENT_DIM, SPACE_DIM > *pElement)=0

virtual c_matrix< double, SPACE_DIM, SPACE_DIM >	ComputeDiffusionTerm (const ChastePoint< SPACE_DIM > &rX)=0

virtual double	ComputeConstantInUSourceTermAtNode (const Node< SPACE_DIM > &rNode)

virtual double	ComputeLinearInUCoeffInSourceTermAtNode (const Node< SPACE_DIM > &rNode)

Public Member Functions inherited from AbstractLinearPde< ELEMENT_DIM, SPACE_DIM >
	AbstractLinearPde ()

virtual	~AbstractLinearPde ()

Protected Attributes
AbstractCellPopulation< DIM, DIM > &	mrCellPopulation

double	mSourceCoefficient

Private Member Functions
template<class Archive >
void	serialize (Archive &archive, const unsigned int version)

Friends
class	TestCellBasedEllipticPdes

class	boost::serialization::access

Detailed Description

template<unsigned DIM>
class CellwiseSourceEllipticPde< DIM >

An elliptic PDE to be solved numerically using the finite element method, for coupling to a cell-based simulation.

The PDE takes the form

Grad.(Grad(u)) + k*u*rho(x) = 0,

where the scalar k is specified by the member mSourceCoefficient, whose value must be set in the constructor.

For a node of the finite element mesh with location x, the function rho(x) equals one if there is a non-apoptotic cell associated with x, and zero otherwise. Here, 'associated with' takes a different meaning for each cell population class, and is encoded in the method IsPdeNodeAssociatedWithNonApoptoticCell().

Todo:: make member names and methods consistent with those of CellwiseSourceParabolicPde

Definition at line 64 of file CellwiseSourceEllipticPde.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>

CellwiseSourceEllipticPde< DIM >::CellwiseSourceEllipticPde	(	AbstractCellPopulation< DIM, DIM > &	rCellPopulation,
		double	sourceCoefficient = `0.0`
	)

Constructor.

Parameters

rCellPopulation	reference to the cell population
sourceCoefficient	the source term coefficient (defaults to 0.0)

Definition at line 39 of file CellwiseSourceEllipticPde.cpp.

Member Function Documentation

template<unsigned DIM>

double CellwiseSourceEllipticPde< DIM >::ComputeConstantInUSourceTerm	(	const ChastePoint< DIM > &	rX,
		Element< DIM, DIM > *	pElement
	)

virtual

Overridden ComputeConstantInUSourceTerm() method.

Parameters

rX	The point in space
pElement	The element

Returns: the constant in u part of the source term, i.e g(x) in Div(D Grad u) + f(x)u + g(x) = 0.

Definition at line 58 of file CellwiseSourceEllipticPde.cpp.

template<unsigned DIM>

c_matrix< double, DIM, DIM > CellwiseSourceEllipticPde< DIM >::ComputeDiffusionTerm ( const ChastePoint< DIM > & rX )

virtual

Overridden ComputeDiffusionTerm() method.

Parameters

rX	The point in space at which the diffusion term is computed

Returns: a matrix.

Definition at line 86 of file CellwiseSourceEllipticPde.cpp.

References EXPORT_TEMPLATE_CLASS_SAME_DIMS.

template<unsigned DIM>

double CellwiseSourceEllipticPde< DIM >::ComputeLinearInUCoeffInSourceTerm	(	const ChastePoint< DIM > &	rX,
		Element< DIM, DIM > *	pElement
	)

virtual

Overridden ComputeLinearInUCoeffInSourceTerm() method.

Parameters

rX	The point in space
pElement	the element

Returns: the coefficient of u in the linear part of the source term, i.e f(x) in Div(D Grad u) + f(x)u + g(x) = 0.

Definition at line 65 of file CellwiseSourceEllipticPde.cpp.

References NEVER_REACHED.

template<unsigned DIM>

double CellwiseSourceEllipticPde< DIM >::ComputeLinearInUCoeffInSourceTermAtNode ( const Node< DIM > & rNode )

virtual

Overridden ComputeLinearInUCoeffInSourceTermAtNode() method.

Parameters

rNode reference to the node

Returns: the coefficient of u in the linear part of the source term, i.e f(x) in Div(D Grad u) + f(x)u + g(x) = 0.

Definition at line 73 of file CellwiseSourceEllipticPde.cpp.

References Node< SPACE_DIM >::GetIndex(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::IsPdeNodeAssociatedWithNonApoptoticCell(), CellwiseSourceEllipticPde< DIM >::mrCellPopulation, and CellwiseSourceEllipticPde< DIM >::mSourceCoefficient.

template<unsigned DIM>

double CellwiseSourceEllipticPde< DIM >::GetCoefficient ( ) const

Returns: mSourceCoefficient (used in archiving).

Definition at line 52 of file CellwiseSourceEllipticPde.cpp.

References CellwiseSourceEllipticPde< DIM >::mSourceCoefficient.

template<unsigned DIM>

const AbstractCellPopulation< DIM, DIM > & CellwiseSourceEllipticPde< DIM >::rGetCellPopulation ( ) const

Returns: const reference to the cell population (used in archiving).

Definition at line 46 of file CellwiseSourceEllipticPde.cpp.

References CellwiseSourceEllipticPde< DIM >::mrCellPopulation.

template<unsigned DIM>

template<class Archive >

void CellwiseSourceEllipticPde< DIM >::serialize	(	Archive &	archive,
		const unsigned int	version
	)

inlineprivate

Serialize the PDE and its member variables.

Parameters

archive	the archive
version	the current version of this class

Definition at line 79 of file CellwiseSourceEllipticPde.hpp.

References CellwiseSourceEllipticPde< DIM >::mSourceCoefficient.

Friends And Related Function Documentation

template<unsigned DIM>

friend class boost::serialization::access

friend

Needed for serialization.

Definition at line 71 of file CellwiseSourceEllipticPde.hpp.

Member Data Documentation

template<unsigned DIM>

AbstractCellPopulation<DIM, DIM>& CellwiseSourceEllipticPde< DIM >::mrCellPopulation

protected

The cell population member.

Definition at line 88 of file CellwiseSourceEllipticPde.hpp.

Referenced by CellwiseSourceEllipticPde< DIM >::ComputeLinearInUCoeffInSourceTermAtNode(), and CellwiseSourceEllipticPde< DIM >::rGetCellPopulation().

template<unsigned DIM>

double CellwiseSourceEllipticPde< DIM >::mSourceCoefficient

protected

Coefficient of the source term.

Definition at line 91 of file CellwiseSourceEllipticPde.hpp.

Referenced by CellwiseSourceEllipticPde< DIM >::ComputeLinearInUCoeffInSourceTermAtNode(), CellwiseSourceEllipticPde< DIM >::GetCoefficient(), and CellwiseSourceEllipticPde< DIM >::serialize().

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

cell_based/src/cell_based_pde/pdes/CellwiseSourceEllipticPde.hpp
cell_based/src/cell_based_pde/pdes/CellwiseSourceEllipticPde.cpp

Public Member Functions

Protected Attributes

Private Member Functions

Friends

Detailed Description

template<unsigned DIM> class CellwiseSourceEllipticPde< DIM >

Constructor & Destructor Documentation

Member Function Documentation

Friends And Related Function Documentation

Member Data Documentation

template<unsigned DIM>
class CellwiseSourceEllipticPde< DIM >