#include <LinearSpringWithVariableSpringConstantsForce.hpp>

Inheritance diagram for LinearSpringWithVariableSpringConstantsForce< DIM >:

Collaboration diagram for LinearSpringWithVariableSpringConstantsForce< DIM >:

Public Member Functions
	LinearSpringWithVariableSpringConstantsForce ()
	~LinearSpringWithVariableSpringConstantsForce ()
void	SetEdgeBasedSpringConstant (bool useEdgeBasedSpringConstant)
void	SetMutantSprings (bool useMutantSprings, double mutantMutantMultiplier=2, double normalMutantMultiplier=1.5)
void	SetBetaCateninSprings (bool useBCatSprings)
void	SetApoptoticSprings (bool useApoptoticSprings)
double	VariableSpringConstantMultiplicationFactor (unsigned nodeAGlobalIndex, unsigned nodeBGlobalIndex, AbstractCellPopulation< DIM > &rCellPopulation, bool isCloserThanRestLength)
void	AddForceContribution (std::vector< c_vector< double, DIM > > &rForces, AbstractCellPopulation< DIM > &rCellPopulation)
double	GetBetaCatSpringScaler ()
void	SetBetaCatSpringScaler (double betaCatSpringScaler)
double	GetApoptoticSpringTensionStiffness ()
void	SetApoptoticSpringTensionStiffness (double apoptoticSpringTensionStiffness)
double	GetApoptoticSpringCompressionStiffness ()
void	SetApoptoticSpringCompressionStiffness (double apoptoticSpringCompressionStiffness)
virtual void	OutputForceParameters (out_stream &rParamsFile)
Protected Attributes
bool	mUseEdgeBasedSpringConstant
bool	mUseMutantSprings
double	mMutantMutantMultiplier
double	mNormalMutantMultiplier
bool	mUseBCatSprings
bool	mUseApoptoticSprings
double	mBetaCatSpringScaler
double	mApoptoticSpringTensionStiffness
double	mApoptoticSpringCompressionStiffness
Private Member Functions
template<class Archive >
void	serialize (Archive &archive, const unsigned int version)
Friends
class	TestLinearSpringWithVariableSpringConstantsForce
class	boost::serialization::access

Detailed Description

template<unsigned DIM>
class LinearSpringWithVariableSpringConstantsForce< DIM >

A subclass of GeneralisedLinearSpringForce with variable spring constants.

Definition at line 52 of file LinearSpringWithVariableSpringConstantsForce.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>

LinearSpringWithVariableSpringConstantsForce< DIM >::LinearSpringWithVariableSpringConstantsForce ( )

Constructor.

Definition at line 43 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

LinearSpringWithVariableSpringConstantsForce< DIM >::~LinearSpringWithVariableSpringConstantsForce ( )

Destructor.

Definition at line 58 of file LinearSpringWithVariableSpringConstantsForce.cpp.

Member Function Documentation

template<unsigned DIM>

void LinearSpringWithVariableSpringConstantsForce< DIM >::AddForceContribution	(	std::vector< c_vector< double, DIM > > &	rForces,
		AbstractCellPopulation< DIM > &	rCellPopulation
	)

Overridden AddForceContribution method.

Parameters:

rForces	reference to vector of forces on nodes
rCellPopulation	reference to the cell population

Definition at line 211 of file LinearSpringWithVariableSpringConstantsForce.cpp.

References EXCEPTION, MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::SpringsBegin(), and MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::SpringsEnd().

template<unsigned DIM>

double LinearSpringWithVariableSpringConstantsForce< DIM >::GetApoptoticSpringCompressionStiffness ( )

Returns:: mApoptoticSpringCompressionStiffness

Definition at line 263 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

double LinearSpringWithVariableSpringConstantsForce< DIM >::GetApoptoticSpringTensionStiffness ( )

Returns:: mApoptoticSpringTensionStiffness

Definition at line 250 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

double LinearSpringWithVariableSpringConstantsForce< DIM >::GetBetaCatSpringScaler ( )

Returns:: mBetaCatSpringScaler

Definition at line 237 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

void LinearSpringWithVariableSpringConstantsForce< DIM >::OutputForceParameters ( out_stream & rParamsFile ) [virtual]

Outputs force parameters to file

As this method is pure virtual, it must be overridden in subclasses.

Parameters:

rParamsFile the file stream to which the parameters are output

Reimplemented from GeneralisedLinearSpringForce< DIM >.

Definition at line 276 of file LinearSpringWithVariableSpringConstantsForce.cpp.

References GeneralisedLinearSpringForce< ELEMENT_DIM, SPACE_DIM >::OutputForceParameters().

template<unsigned DIM>

template<class Archive >

void LinearSpringWithVariableSpringConstantsForce< DIM >::serialize	(	Archive &	archive,
		const unsigned int	version
	)		`[inline, private]`

Archive the object and its member variables.

Parameters:

archive	the archive
version	the current version of this class

Reimplemented from GeneralisedLinearSpringForce< DIM >.

Definition at line 67 of file LinearSpringWithVariableSpringConstantsForce.hpp.

template<unsigned DIM>

void LinearSpringWithVariableSpringConstantsForce< DIM >::SetApoptoticSpringCompressionStiffness ( double apoptoticSpringCompressionStiffness )

Set mApoptoticSpringCompressionStiffness.

Parameters:

apoptoticSpringCompressionStiffness the new value of mApoptoticSpringCompressionStiffness

Definition at line 269 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

void LinearSpringWithVariableSpringConstantsForce< DIM >::SetApoptoticSprings ( bool useApoptoticSprings )

Set spring stiffness to be dependent on whether cells are apoptotic

Parameters:

useApoptoticSprings whether to have apoptosis-dependent spring stiffness

Definition at line 84 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

void LinearSpringWithVariableSpringConstantsForce< DIM >::SetApoptoticSpringTensionStiffness ( double apoptoticSpringTensionStiffness )

Set mApoptoticSpringTensionStiffness.

Parameters:

apoptoticSpringTensionStiffness the new value of mApoptoticSpringTensionStiffness

Definition at line 256 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

void LinearSpringWithVariableSpringConstantsForce< DIM >::SetBetaCateninSprings ( bool useBCatSprings )

Use the amount of beta-catenin on an edge to find spring constant.

Parameters:

useBCatSprings whether to use beta-catenin-dependent spring stiffness

Definition at line 78 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

void LinearSpringWithVariableSpringConstantsForce< DIM >::SetBetaCatSpringScaler ( double betaCatSpringScaler )

Set mBetaCatSpringScaler.

Parameters:

betaCatSpringScaler the new value of mBetaCatSpringScaler

Definition at line 243 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

void LinearSpringWithVariableSpringConstantsForce< DIM >::SetEdgeBasedSpringConstant ( bool useEdgeBasedSpringConstant )

Set whether to use an edge-based spring constant.

Parameters:

useEdgeBasedSpringConstant whether to use an edge-based spring constant

Definition at line 63 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

void LinearSpringWithVariableSpringConstantsForce< DIM >::SetMutantSprings	(	bool	useMutantSprings,
		double	mutantMutantMultiplier = `2`,
		double	normalMutantMultiplier = `1.5`
	)

Use different spring strengths depending on two cells: Normal-normal, Normal-mutant, mutant-mutant

Parameters:

useMutantSprings	whether to use mutant springs
mutantMutantMultiplier	the multiplier for springs connecting two mutant cells
normalMutantMultiplier	the multiplier for springs connecting a mutant cell with a normal cell

Definition at line 70 of file LinearSpringWithVariableSpringConstantsForce.cpp.

template<unsigned DIM>

double LinearSpringWithVariableSpringConstantsForce< DIM >::VariableSpringConstantMultiplicationFactor	(	unsigned	nodeAGlobalIndex,
		unsigned	nodeBGlobalIndex,
		AbstractCellPopulation< DIM > &	rCellPopulation,
		bool	isCloserThanRestLength
	)

Return a multiplication factor for the spring constant, which may depend on whether the given pair of neighbouring cells are e.g. undergoing apoptosis, have mutations, or experience variable levels of beta catenin.

Parameters:

nodeAGlobalIndex	index of one neighbouring node
nodeBGlobalIndex	index of the other neighbouring node
rCellPopulation	the cell population
isCloserThanRestLength	whether the neighbouring nodes lie closer than the rest length of their connecting spring