#include <AveragedSourcePde.hpp>

Inheritance diagram for AveragedSourcePde< DIM >:

Collaboration diagram for AveragedSourcePde< DIM >:

Public Member Functions
	AveragedSourcePde (AbstractCellPopulation< DIM > &rCellPopulation, double coefficient=0.0)

const AbstractCellPopulation < DIM > &	rGetCellPopulation () const

double	GetCoefficient () const

virtual void	SetupSourceTerms (TetrahedralMesh< DIM, DIM > &rCoarseMesh, std::map< CellPtr, unsigned > *pCellPdeElementMap=NULL)

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

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

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

double	GetUptakeRateForElement (unsigned elementIndex)

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)

Protected Attributes
AbstractCellPopulation< DIM > &	mrCellPopulation

double	mCoefficient

std::vector< double >	mCellDensityOnCoarseElements

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

Friends
class	TestCellBasedPdes

class	boost::serialization::access

Detailed Description

template<unsigned DIM>
class AveragedSourcePde< DIM >

An Elliptic PDE which calculates the source term by adding the number of cells in the element containing that point and scaling by the element area.

Definition at line 52 of file AveragedSourcePde.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>

AveragedSourcePde< DIM >::AveragedSourcePde	(	AbstractCellPopulation< DIM > &	rCellPopulation,
		double	coefficient = `0.0`
	)

Constructor.

Parameters

rCellPopulation	reference to the cell population
coefficient	the coefficient of consumption of nutrient by cells (defaults to 0.0)

Definition at line 41 of file AveragedSourcePde.cpp.

Member Function Documentation

template<unsigned DIM>

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

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 106 of file AveragedSourcePde.cpp.

template<unsigned DIM>

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

Overridden ComputeDiffusionTerm() method.

Parameters

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

Returns: a matrix.

Definition at line 119 of file AveragedSourcePde.cpp.

template<unsigned DIM>

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

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 112 of file AveragedSourcePde.cpp.

References AbstractElement< ELEMENT_DIM, SPACE_DIM >::GetIndex().

template<unsigned DIM>

double AveragedSourcePde< DIM >::GetCoefficient ( ) const

Returns: mCoefficient

Definition at line 54 of file AveragedSourcePde.cpp.

template<unsigned DIM>

double AveragedSourcePde< DIM >::GetUptakeRateForElement ( unsigned elementIndex )

Returns: the uptake rate.

Parameters

elementIndex the element we wish to return the uptake rate for

Definition at line 125 of file AveragedSourcePde.cpp.

template<unsigned DIM>

const AbstractCellPopulation< DIM > & AveragedSourcePde< DIM >::rGetCellPopulation ( ) const

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

Definition at line 48 of file AveragedSourcePde.cpp.

template<unsigned DIM>

template<class Archive >

void AveragedSourcePde< 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 67 of file AveragedSourcePde.hpp.

References AveragedSourcePde< DIM >::mCellDensityOnCoarseElements, and AveragedSourcePde< DIM >::mCoefficient.

template<unsigned DIM>

void AveragedSourcePde< DIM >::SetupSourceTerms	(	TetrahedralMesh< DIM, DIM > &	rCoarseMesh,
		std::map< CellPtr, unsigned > *	pCellPdeElementMap = `NULL`
	)