#include <AbstractBoxDomainPdeModifier.hpp>

Inheritance diagram for AbstractBoxDomainPdeModifier< DIM >:

Collaboration diagram for AbstractBoxDomainPdeModifier< DIM >:

Public Member Functions
	AbstractBoxDomainPdeModifier (boost::shared_ptr< AbstractLinearPde< DIM, DIM > > pPde=boost::shared_ptr< AbstractLinearPde< DIM, DIM > >(), boost::shared_ptr< AbstractBoundaryCondition< DIM > > pBoundaryCondition=boost::shared_ptr< AbstractBoundaryCondition< DIM > >(), bool isNeumannBoundaryCondition=true, boost::shared_ptr< ChasteCuboid< DIM > > pMeshCuboid=boost::shared_ptr< ChasteCuboid< DIM > >(), double stepSize=1.0, Vec solution=nullptr)

	~AbstractBoxDomainPdeModifier () override=default

double	GetStepSize () const

void	SetBcsOnBoxBoundary (bool setBcsOnBoxBoundary)

bool	AreBcsSetOnBoxBoundary () const

void	SetBcsOnBoundingSphere (bool setBcsOnBoundingSphere)

bool	AreBcsSetOnBoundingSphere () const

void	SetUseVoronoiCellsForInterpolation (bool useVoronoiCellsForInterpolation)

bool	GetUseVoronoiCellsForInterpolation () const

void	SetTypicalCellRadius (double typicalCellRadius)

double	GetTypicalCellRadius () const

void	ConstructBoundaryConditionsContainerHelper (AbstractCellPopulation< DIM, DIM > &rCellPopulation, std::shared_ptr< BoundaryConditionsContainer< DIM, DIM, 1 > > pBcc)

void	SetupSolve (AbstractCellPopulation< DIM, DIM > &rCellPopulation, std::string outputDirectory) override

void	GenerateFeMesh (boost::shared_ptr< ChasteCuboid< DIM > > pMeshCuboid, double stepSize)

void	GenerateAndReturnFeMesh (boost::shared_ptr< ChasteCuboid< DIM > > pMeshCuboid, double stepSize, TetrahedralMesh< DIM, DIM > *pMesh)

void	UpdateCellData (AbstractCellPopulation< DIM, DIM > &rCellPopulation)

void	InitialiseCellPdeElementMap (AbstractCellPopulation< DIM, DIM > &rCellPopulation)

void	UpdateCellPdeElementMap (AbstractCellPopulation< DIM, DIM > &rCellPopulation)

void	OutputSimulationModifierParameters (out_stream &rParamsFile) override

Public Member Functions inherited from AbstractPdeModifier< DIM >
	AbstractPdeModifier (boost::shared_ptr< AbstractLinearPde< DIM, DIM > > pPde=NULL, boost::shared_ptr< AbstractBoundaryCondition< DIM > > pBoundaryCondition=boost::shared_ptr< AbstractBoundaryCondition< DIM > >(), bool isNeumannBoundaryCondition=true, Vec solution=nullptr)

	~AbstractPdeModifier () override

boost::shared_ptr< AbstractLinearPde< DIM, DIM > >	GetPde ()

boost::shared_ptr< AbstractBoundaryCondition< DIM > >	GetBoundaryCondition ()

bool	IsNeumannBoundaryCondition () const

void	SetDependentVariableName (const std::string &rName)

std::string &	rGetDependentVariableName ()

bool	HasAveragedSourcePde ()

void	SetUpSourceTermsForAveragedSourcePde (TetrahedralMesh< DIM, DIM > pMesh, std::map< CellPtr, unsigned > pCellPdeElementMap=nullptr)

Vec	GetSolution ()

Vec	GetSolution () const

TetrahedralMesh< DIM, DIM > *	GetFeMesh () const

void	SetupSolve (AbstractCellPopulation< DIM, DIM > &rCellPopulation, std::string outputDirectory) override

void	UpdateAtEndOfTimeStep (AbstractCellPopulation< DIM, DIM > &rCellPopulation) override=0

void	UpdateAtEndOfOutputTimeStep (AbstractCellPopulation< DIM, DIM > &rCellPopulation) override

void	UpdateAtEndOfSolve (AbstractCellPopulation< DIM, DIM > &rCellPopulation) override

bool	GetOutputGradient () const

void	SetOutputGradient (bool outputGradient)

void	SetOutputSolutionAtPdeNodes (bool outputSolutionAtPdeNodes)

void	OutputSimulationModifierParameters (out_stream &rParamsFile) override

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

virtual	~AbstractCellBasedSimulationModifier ()

virtual void	UpdateAtEndOfTimeStep (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)=0

virtual void	UpdateAtEndOfOutputTimeStep (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)

virtual void	SetupSolve (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation, std::string outputDirectory)=0

virtual void	UpdateAtEndOfSolve (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)

void	OutputSimulationModifierInfo (out_stream &rParamsFile)

Public Member Functions inherited from Identifiable
virtual	~Identifiable ()

std::string	GetIdentifier () const

Protected Attributes
std::map< CellPtr, unsigned >	mCellPdeElementMap

boost::shared_ptr< ChasteCuboid< DIM > >	mpMeshCuboid

double	mStepSize

bool	mSetBcsOnBoxBoundary

bool	mSetBcsOnBoundingSphere

bool	mUseVoronoiCellsForInterpolation

double	mTypicalCellRadius

Protected Attributes inherited from AbstractPdeModifier< DIM >
boost::shared_ptr< AbstractLinearPde< DIM, DIM > >	mpPde

boost::shared_ptr< AbstractBoundaryCondition< DIM > >	mpBoundaryCondition

bool	mIsNeumannBoundaryCondition

std::string	mDependentVariableName

Vec	mSolution = nullptr

TetrahedralMesh< DIM, DIM > *	mpFeMesh = nullptr

std::string	mOutputDirectory {}

bool	mOutputGradient = false

bool	mOutputSolutionAtPdeNodes = false

out_stream	mpVizPdeSolutionResultsFile

bool	mDeleteFeMesh = false

std::vector< double >	mIsDirichletBoundaryNode

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

Friends
class	TestEllipticBoxDomainPdeModifier

class	TestParabolicBoxDomainPdeModifier

class	TestOffLatticeSimulationWithPdes

class	boost::serialization::access

Detailed Description

template<unsigned DIM>
class AbstractBoxDomainPdeModifier< DIM >

An abstract modifier class containing functionality common to EllipticBoxDomainPdeModifier and ParabolicBoxDomainPdeModifier, which both solve a linear elliptic or parabolic PDE coupled to a cell-based simulation on a coarse domain.

Definition at line 51 of file AbstractBoxDomainPdeModifier.hpp.

Constructor & Destructor Documentation

◆ AbstractBoxDomainPdeModifier()

template<unsigned DIM>

AbstractBoxDomainPdeModifier< DIM >::AbstractBoxDomainPdeModifier	(	boost::shared_ptr< AbstractLinearPde< DIM, DIM > >	pPde = `boost::shared_ptr<AbstractLinearPde<DIM,DIM> >()`,
		boost::shared_ptr< AbstractBoundaryCondition< DIM > >	pBoundaryCondition = `boost::shared_ptr<AbstractBoundaryCondition<DIM> >()`,
		bool	isNeumannBoundaryCondition = `true`,
		boost::shared_ptr< ChasteCuboid< DIM > >	pMeshCuboid = `boost::shared_ptr<ChasteCuboid<DIM> >()`,
		double	stepSize = `1.0`,
		Vec	solution = `nullptr`
	)

Constructor.

Parameters

pPde	A shared pointer to a linear PDE object (defaults to NULL)
pBoundaryCondition	A shared pointer to an abstract boundary condition (defaults to NULL, corresponding to a constant boundary condition with value zero)
isNeumannBoundaryCondition	Whether the boundary condition is Neumann (defaults to true)
pMeshCuboid	A shared pointer to a ChasteCuboid specifying the outer boundary for the FE mesh (defaults to NULL)
stepSize	step size to be used in the FE mesh (defaults to 1.0, i.e. the default cell size)
solution	solution vector (defaults to NULL)

Definition at line 41 of file AbstractBoxDomainPdeModifier.cpp.

References AbstractBoxDomainPdeModifier< DIM >::GenerateFeMesh(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), AbstractPdeModifier< DIM >::mDeleteFeMesh, AbstractPdeModifier< DIM >::mIsDirichletBoundaryNode, AbstractPdeModifier< DIM >::mpFeMesh, AbstractBoxDomainPdeModifier< DIM >::mpMeshCuboid, and AbstractBoxDomainPdeModifier< DIM >::mStepSize.

◆ ~AbstractBoxDomainPdeModifier()

template<unsigned DIM>

AbstractBoxDomainPdeModifier< DIM >::~AbstractBoxDomainPdeModifier ( )

overridedefault

Destructor.

Member Function Documentation

◆ AreBcsSetOnBoundingSphere()

template<unsigned DIM>

bool AbstractBoxDomainPdeModifier< DIM >::AreBcsSetOnBoundingSphere ( ) const

Returns: mSetBcsOnBoundingSphere.

Definition at line 93 of file AbstractBoxDomainPdeModifier.cpp.

◆ AreBcsSetOnBoxBoundary()

template<unsigned DIM>

bool AbstractBoxDomainPdeModifier< DIM >::AreBcsSetOnBoxBoundary ( ) const

Returns: mSetBcsOnCoarseBoundary.

Definition at line 81 of file AbstractBoxDomainPdeModifier.cpp.

◆ ConstructBoundaryConditionsContainerHelper()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::ConstructBoundaryConditionsContainerHelper	(	AbstractCellPopulation< DIM, DIM > &	rCellPopulation,
		std::shared_ptr< BoundaryConditionsContainer< DIM, DIM, 1 > >	pBcc
	)

Helper method to construct the boundary conditions container for the PDE.

Parameters

rCellPopulation	reference to the cell population
pBcc	the boundary conditions container to fill

Definition at line 124 of file AbstractBoxDomainPdeModifier.cpp.

References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::Begin(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::End(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationOfCellCentre(), AbstractElement< ELEMENT_DIM, SPACE_DIM >::GetNodeGlobalIndex(), NEVER_REACHED, and ChastePoint< DIM >::rGetLocation().

◆ GenerateAndReturnFeMesh()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::GenerateAndReturnFeMesh	(	boost::shared_ptr< ChasteCuboid< DIM > >	pMeshCuboid,
		double	stepSize,
		TetrahedralMesh< DIM, DIM > *	pMesh
	)

Helper method to generate a pde mesh.

Parameters

pMeshCuboid	the outer boundary for the FE mesh.
stepSize	the step size to be used in the FE mesh.
pMesh	a pointer to the mesh to be created

Definition at line 324 of file AbstractBoxDomainPdeModifier.cpp.

References AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructRegularSlabMesh(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNode(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), NEVER_REACHED, ChastePoint< DIM >::rGetLocation(), and AbstractMesh< ELEMENT_DIM, SPACE_DIM >::Translate().

◆ GenerateFeMesh()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::GenerateFeMesh	(	boost::shared_ptr< ChasteCuboid< DIM > >	pMeshCuboid,
		double	stepSize
	)

Helper method to generate the pde mesh for the first time.

Parameters

pMeshCuboid	the outer boundary for the FE mesh.
stepSize	the step size to be used in the FE mesh.

Definition at line 315 of file AbstractBoxDomainPdeModifier.cpp.

Referenced by AbstractBoxDomainPdeModifier< DIM >::AbstractBoxDomainPdeModifier().

◆ GetStepSize()

template<unsigned DIM>

double AbstractBoxDomainPdeModifier< DIM >::GetStepSize ( ) const

Returns: mStepSize.

Definition at line 69 of file AbstractBoxDomainPdeModifier.cpp.

◆ GetTypicalCellRadius()

template<unsigned DIM>

double AbstractBoxDomainPdeModifier< DIM >::GetTypicalCellRadius ( ) const

Returns: mTypicalCellRadius.

Definition at line 118 of file AbstractBoxDomainPdeModifier.cpp.

◆ GetUseVoronoiCellsForInterpolation()

template<unsigned DIM>

bool AbstractBoxDomainPdeModifier< DIM >::GetUseVoronoiCellsForInterpolation ( ) const

Returns: mUseVoronoiCellsForInterpolation.

Definition at line 105 of file AbstractBoxDomainPdeModifier.cpp.

◆ InitialiseCellPdeElementMap()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::InitialiseCellPdeElementMap ( AbstractCellPopulation< DIM, DIM > & rCellPopulation )

Initialise mCellPdeElementMap.

Parameters

rCellPopulation reference to the cell population

Definition at line 508 of file AbstractBoxDomainPdeModifier.cpp.

References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::Begin(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::End(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationOfCellCentre().

◆ OutputSimulationModifierParameters()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::OutputSimulationModifierParameters ( out_stream & rParamsFile )

overridevirtual

Overridden OutputSimulationModifierParameters() method. Output any simulation modifier parameters to file.

Parameters

rParamsFile the file stream to which the parameters are output

Implements AbstractCellBasedSimulationModifier< DIM, DIM >.

Reimplemented in EllipticBoxDomainPdeModifier< DIM >, and ParabolicBoxDomainPdeModifier< DIM >.

Definition at line 538 of file AbstractBoxDomainPdeModifier.cpp.

References AbstractPdeModifier< DIM >::OutputSimulationModifierParameters().

Referenced by EllipticBoxDomainPdeModifier< DIM >::OutputSimulationModifierParameters(), and ParabolicBoxDomainPdeModifier< DIM >::OutputSimulationModifierParameters().

◆ serialize()

template<unsigned DIM>

template<class Archive >

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

inlineprivate

Boost Serialization method for archiving/checkpointing. Archives the object and its member variables.

Parameters

archive	The boost archive.
version	The current version of this class.

Definition at line 69 of file AbstractBoxDomainPdeModifier.hpp.

References AbstractBoxDomainPdeModifier< DIM >::mpMeshCuboid, AbstractBoxDomainPdeModifier< DIM >::mSetBcsOnBoundingSphere, AbstractBoxDomainPdeModifier< DIM >::mSetBcsOnBoxBoundary, AbstractBoxDomainPdeModifier< DIM >::mStepSize, AbstractBoxDomainPdeModifier< DIM >::mTypicalCellRadius, and AbstractBoxDomainPdeModifier< DIM >::mUseVoronoiCellsForInterpolation.

◆ SetBcsOnBoundingSphere()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::SetBcsOnBoundingSphere ( bool setBcsOnBoundingSphere )

Set mSetBcsOnBoundingSphere.

Parameters

setBcsOnBoundingSphere whether to set the boundary condition on the edge of the box domain rather than the cell population

Definition at line 87 of file AbstractBoxDomainPdeModifier.cpp.

◆ SetBcsOnBoxBoundary()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::SetBcsOnBoxBoundary ( bool setBcsOnBoxBoundary )

Set mSetBcsOnCoarseBoundary.

Parameters

setBcsOnBoxBoundary whether to set the boundary condition on the edge of the box domain rather than the cell population

Definition at line 75 of file AbstractBoxDomainPdeModifier.cpp.

◆ SetTypicalCellRadius()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::SetTypicalCellRadius ( double typicalCellRadius )

Set mTypicalCellRadius.

Parameters

typicalCellRadius the radius to use for defining if FE nodes are near cells or not.

Definition at line 111 of file AbstractBoxDomainPdeModifier.cpp.

◆ SetupSolve()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::SetupSolve	(	AbstractCellPopulation< DIM, DIM > &	rCellPopulation,
		std::string	outputDirectory
	)

override

Overridden SetupSolve() method.

Specifies what to do in the simulation before the start of the time loop.

Here we just initialize the Cell PDE element map

Parameters

rCellPopulation	reference to the cell population
outputDirectory	the output directory, relative to where Chaste output is stored

Definition at line 307 of file AbstractBoxDomainPdeModifier.cpp.

References AbstractPdeModifier< DIM >::SetupSolve().

Referenced by EllipticBoxDomainPdeModifier< DIM >::SetupSolve(), and ParabolicBoxDomainPdeModifier< DIM >::SetupSolve().

◆ SetUseVoronoiCellsForInterpolation()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::SetUseVoronoiCellsForInterpolation ( bool useVoronoiCellsForInterpolation )

Set mUseVoronoiCellsForInterpolation.

Parameters

useVoronoiCellsForInterpolation whether to use the Voronoi region of cells for interpolation of the solution from the FE mesh to the cells.

Definition at line 99 of file AbstractBoxDomainPdeModifier.cpp.

◆ UpdateCellData()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::UpdateCellData ( AbstractCellPopulation< DIM, DIM > & rCellPopulation )

Helper method to copy the PDE solution to CellData

Here we need to interpolate from the FE mesh onto the cells.

Parameters

rCellPopulation reference to the cell population

Definition at line 360 of file AbstractBoxDomainPdeModifier.cpp.

References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::Begin(), Element< ELEMENT_DIM, SPACE_DIM >::CalculateInterpolationWeights(), LinearBasisFunction< ELEMENT_DIM >::ComputeTransformedBasisFunctionDerivatives(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::End(), EXCEPTION, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationIndexUsingCell(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationOfCellCentre(), AbstractElement< ELEMENT_DIM, SPACE_DIM >::GetNodeGlobalIndex(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), NEVER_REACHED, and UNSIGNED_UNSET.

◆ UpdateCellPdeElementMap()

template<unsigned DIM>

void AbstractBoxDomainPdeModifier< DIM >::UpdateCellPdeElementMap ( AbstractCellPopulation< DIM, DIM > & rCellPopulation )

Update the mCellPdeElementMap

This method should be called before sending the element map to a PDE class to ensure map is up to date.

Parameters

rCellPopulation reference to the cell population

Definition at line 524 of file AbstractBoxDomainPdeModifier.cpp.

References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::Begin(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::End(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationOfCellCentre().

Friends And Related Symbol Documentation

◆ boost::serialization::access

template<unsigned DIM>

friend class boost::serialization::access

friend

Needed for serialization.

Definition at line 60 of file AbstractBoxDomainPdeModifier.hpp.

◆ TestEllipticBoxDomainPdeModifier

template<unsigned DIM>

friend class TestEllipticBoxDomainPdeModifier

friend

Definition at line 53 of file AbstractBoxDomainPdeModifier.hpp.

◆ TestOffLatticeSimulationWithPdes

template<unsigned DIM>

friend class TestOffLatticeSimulationWithPdes

friend

Definition at line 55 of file AbstractBoxDomainPdeModifier.hpp.

◆ TestParabolicBoxDomainPdeModifier

template<unsigned DIM>

friend class TestParabolicBoxDomainPdeModifier

friend

Definition at line 54 of file AbstractBoxDomainPdeModifier.hpp.

Member Data Documentation

◆ mCellPdeElementMap

template<unsigned DIM>

std::map<CellPtr, unsigned> AbstractBoxDomainPdeModifier< DIM >::mCellPdeElementMap

protected

Map between cells and the elements of the FE mesh containing them.

Definition at line 83 of file AbstractBoxDomainPdeModifier.hpp.

◆ mpMeshCuboid

template<unsigned DIM>

boost::shared_ptr<ChasteCuboid<DIM> > AbstractBoxDomainPdeModifier< DIM >::mpMeshCuboid

protected

Pointer to a ChasteCuboid storing the outer boundary for the FE mesh. Stored as a member to facilitate archiving.

Definition at line 89 of file AbstractBoxDomainPdeModifier.hpp.

Referenced by AbstractBoxDomainPdeModifier< DIM >::AbstractBoxDomainPdeModifier(), and AbstractBoxDomainPdeModifier< DIM >::serialize().

◆ mSetBcsOnBoundingSphere

template<unsigned DIM>

bool AbstractBoxDomainPdeModifier< DIM >::mSetBcsOnBoundingSphere

protected

Whether to set the boundary condition on a sphere which bounds the cell centres of the tissue. Only used if mSetBcsOnBoxBoundary is false. Default to false.

Definition at line 108 of file AbstractBoxDomainPdeModifier.hpp.

Referenced by AbstractBoxDomainPdeModifier< DIM >::serialize().

◆ mSetBcsOnBoxBoundary

template<unsigned DIM>

bool AbstractBoxDomainPdeModifier< DIM >::mSetBcsOnBoxBoundary

protected

Whether to set the boundary condition on the edge of the box domain rather than the cell population. Default to true.

Definition at line 101 of file AbstractBoxDomainPdeModifier.hpp.

Referenced by AbstractBoxDomainPdeModifier< DIM >::serialize().

◆ mStepSize

template<unsigned DIM>

double AbstractBoxDomainPdeModifier< DIM >::mStepSize

protected

The step size to be used in the FE mesh. Stored as a member to facilitate archiving.

Definition at line 95 of file AbstractBoxDomainPdeModifier.hpp.

Referenced by AbstractBoxDomainPdeModifier< DIM >::AbstractBoxDomainPdeModifier(), and AbstractBoxDomainPdeModifier< DIM >::serialize().

◆ mTypicalCellRadius

template<unsigned DIM>

double AbstractBoxDomainPdeModifier< DIM >::mTypicalCellRadius

protected

Used to define if a FE node is within a certain radius of a cell centre to help define boundary conditions when mSetBcsOnBoxBoundary and mSetBcsOnBoundingSphere are false

defaults to 0.5 CD

Definition at line 121 of file AbstractBoxDomainPdeModifier.hpp.

Referenced by AbstractBoxDomainPdeModifier< DIM >::serialize().

◆ mUseVoronoiCellsForInterpolation

template<unsigned DIM>

bool AbstractBoxDomainPdeModifier< DIM >::mUseVoronoiCellsForInterpolation

protected

Whether to use a cell centres Voronoi region to interpolate the pde solution onto cells.

Definition at line 113 of file AbstractBoxDomainPdeModifier.hpp.

Referenced by AbstractBoxDomainPdeModifier< DIM >::serialize().

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

cell_based/src/cell_based_pde/AbstractBoxDomainPdeModifier.hpp
cell_based/src/cell_based_pde/AbstractBoxDomainPdeModifier.cpp

Public Member Functions

Protected Attributes

Private Member Functions

Friends

Detailed Description

Constructor & Destructor Documentation

◆ AbstractBoxDomainPdeModifier()

◆ ~AbstractBoxDomainPdeModifier()

Member Function Documentation

◆ AreBcsSetOnBoundingSphere()

◆ AreBcsSetOnBoxBoundary()

◆ ConstructBoundaryConditionsContainerHelper()

◆ GenerateAndReturnFeMesh()

◆ GenerateFeMesh()

◆ GetStepSize()

◆ GetTypicalCellRadius()

◆ GetUseVoronoiCellsForInterpolation()

◆ InitialiseCellPdeElementMap()

◆ OutputSimulationModifierParameters()

◆ serialize()

◆ SetBcsOnBoundingSphere()

◆ SetBcsOnBoxBoundary()

◆ SetTypicalCellRadius()

◆ SetupSolve()

◆ SetUseVoronoiCellsForInterpolation()

◆ UpdateCellData()

◆ UpdateCellPdeElementMap()

Friends And Related Symbol Documentation

◆ boost::serialization::access

◆ TestEllipticBoxDomainPdeModifier

◆ TestOffLatticeSimulationWithPdes

◆ TestParabolicBoxDomainPdeModifier

Member Data Documentation

◆ mCellPdeElementMap

◆ mpMeshCuboid

◆ mSetBcsOnBoundingSphere

◆ mSetBcsOnBoxBoundary

◆ mStepSize

◆ mTypicalCellRadius

◆ mUseVoronoiCellsForInterpolation