#include <CellBasedPdeHandlerOnCuboid.hpp>

Inheritance diagram for CellBasedPdeHandlerOnCuboid< DIM >:

Collaboration diagram for CellBasedPdeHandlerOnCuboid< DIM >:

Public Member Functions
	CellBasedPdeHandlerOnCuboid (AbstractCellPopulation< DIM > *pCellPopulation, bool deleteMemberPointersInDestructor=false)

virtual	~CellBasedPdeHandlerOnCuboid ()

std::auto_ptr < BoundaryConditionsContainer < DIM, DIM, 1 > >	ConstructBoundaryConditionsContainer (PdeAndBoundaryConditions< DIM > pPdeAndBc, TetrahedralMesh< DIM, DIM > pMesh)

virtual void	OutputParameters (out_stream &rParamsFile)

Public Member Functions inherited from CellBasedPdeHandler< DIM >
	CellBasedPdeHandler (AbstractCellPopulation< DIM > *pCellPopulation, bool deleteMemberPointersInDestructor=false)

virtual	~CellBasedPdeHandler ()

const AbstractCellPopulation < DIM > *	GetCellPopulation () const

TetrahedralMesh< DIM, DIM > *	GetCoarsePdeMesh ()

void	OpenResultsFiles (std::string outputDirectory)

void	CloseResultsFiles ()

bool	GetWriteAverageRadialPdeSolution ()

bool	GetWriteDailyAverageRadialPdeSolution ()

void	UpdateCellPdeElementMap ()

bool	GetImposeBcsOnCoarseBoundary ()

unsigned	GetNumRadialIntervals ()

virtual void	SolvePdeAndWriteResultsToFile (unsigned samplingTimestepMultiple)

double	GetPdeSolutionAtPoint (const c_vector< double, DIM > &rPoint, const std::string &rVariable)

unsigned	FindCoarseElementContainingCell (CellPtr pCell)

virtual Vec	GetPdeSolution (const std::string &rName="")

void	SetWriteAverageRadialPdeSolution (const std::string &rName, unsigned numRadialIntervals=10, bool writeDailyResults=false)

void	SetImposeBcsOnCoarseBoundary (bool setBcsOnCoarseBoundary)

virtual void	UseCoarsePdeMesh (double stepSize, ChasteCuboid< DIM > meshCuboid, bool centreOnCellPopulation=false)

void	AddPdeAndBc (PdeAndBoundaryConditions< DIM > *pPdeAndBc)

Public Member Functions inherited from Identifiable
virtual	~Identifiable ()

std::string	GetIdentifier () const

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

Private Attributes
std::vector < ConstBoundaryCondition< DIM > * >	mConstBoundaryConditions

Friends
class	TestCellBasedPdeHandler

class	TestOffLatticeSimulationWithPdes

class	TestOnLatticeSimulationWithPdes

class	boost::serialization::access

Additional Inherited Members
Protected Member Functions inherited from CellBasedPdeHandler< DIM >
void	InitialiseCellPdeElementMap ()

virtual void	WritePdeSolution (double time)

void	WriteAverageRadialPdeSolution (double time)

bool	PdeSolveNeedsCoarseMesh ()

Protected Attributes inherited from CellBasedPdeHandler< DIM >
AbstractCellPopulation< DIM > *	mpCellPopulation

std::vector < PdeAndBoundaryConditions < DIM > * >	mPdeAndBcCollection

std::string	mDirPath

out_stream	mpVizPdeSolutionResultsFile

out_stream	mpAverageRadialPdeSolutionResultsFile

bool	mWriteAverageRadialPdeSolution

bool	mWriteDailyAverageRadialPdeSolution

std::string	mAverageRadialSolutionVariableName

bool	mSetBcsOnCoarseBoundary

unsigned	mNumRadialIntervals

TetrahedralMesh< DIM, DIM > *	mpCoarsePdeMesh

std::map< CellPtr, unsigned >	mCellPdeElementMap

bool	mDeleteMemberPointersInDestructor

Detailed Description

template<unsigned DIM>
class CellBasedPdeHandlerOnCuboid< DIM >

A helper class, containing code for handling the numerical solution of one or more PDEs (using the finite element method) associated with a cell-based simulation object.

By letting AbstractCellBasedSimulation have a pointer to an object of this type as a member variable, we separate out all PDE-related functionality into this class, and thus obviate the need for specialized cell-based simulation subclasses.

Definition at line 56 of file CellBasedPdeHandlerOnCuboid.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>

CellBasedPdeHandlerOnCuboid< DIM >::CellBasedPdeHandlerOnCuboid	(	AbstractCellPopulation< DIM > *	pCellPopulation,
		bool	deleteMemberPointersInDestructor = `false`
	)

Constructor.

Parameters

pCellPopulation	pointer to a cell population
deleteMemberPointersInDestructor	whether to delete member pointers in the destructor (defaults to false)

Definition at line 40 of file CellBasedPdeHandlerOnCuboid.cpp.

template<unsigned DIM>

CellBasedPdeHandlerOnCuboid< DIM >::~CellBasedPdeHandlerOnCuboid ( )

virtual

Destructor.

Definition at line 47 of file CellBasedPdeHandlerOnCuboid.cpp.

Member Function Documentation

template<unsigned DIM>

std::auto_ptr< BoundaryConditionsContainer< DIM, DIM, 1 > > CellBasedPdeHandlerOnCuboid< DIM >::ConstructBoundaryConditionsContainer	(	PdeAndBoundaryConditions< DIM > *	pPdeAndBc,
		TetrahedralMesh< DIM, DIM > *	pMesh
	)