#include <PopulationTestingForce.hpp>

Inheritance diagram for PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >:

Collaboration diagram for PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >:

Public Member Functions
	PopulationTestingForce (bool hasPositionDependence=true)

void	AddForceContribution (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)

c_vector< double, SPACE_DIM >	GetExpectedOneStepLocationFE (unsigned nodeIndex, double damping, c_vector< double, SPACE_DIM > &oldLocation, double dt)

c_vector< double, SPACE_DIM >	GetExpectedOneStepLocationRK4 (unsigned nodeIndex, double damping, c_vector< double, SPACE_DIM > &oldLocation, double dt)

c_vector< double, SPACE_DIM >	GetExpectedOneStepLocationAM2 (unsigned nodeIndex, double damping, c_vector< double, SPACE_DIM > &oldLocation, double dt)

c_vector< double, SPACE_DIM >	GetExpectedOneStepLocationBE (unsigned nodeIndex, double damping, c_vector< double, SPACE_DIM > &oldLocation, double dt)

virtual void	OutputForceParameters (out_stream &rParamsFile)

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

virtual	~AbstractForce ()

void	OutputForceInfo (out_stream &rParamsFile)

virtual void	WriteDataToVisualizerSetupFile (out_stream &pVizSetupFile)

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
bool	mWithPositionDependence

Friends
class	boost::serialization::access

Detailed Description

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM = ELEMENT_DIM>
class PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >

A simple force law used to test node location updates across the off lattice population test files.

Definition at line 48 of file PopulationTestingForce.hpp.

Constructor & Destructor Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::PopulationTestingForce ( bool hasPositionDependence = true )

Constructor.

Parameters

hasPositionDependence specifys which testing force to use (defaults to true)

Definition at line 39 of file PopulationTestingForce.cpp.

Member Function Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::AddForceContribution ( AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > & rCellPopulation )

virtual

Overridden AddForceContribution() method.

Parameters

rCellPopulation reference to the cell population

THis has two forces depending on the member variable mWithPositionDependence

If true then

For node i F[j] = 0.01 (j+1) i r[j]

Where r is the position of node i.

if false then

F[j] = 0.01 (j+1) i

Implements AbstractForce< ELEMENT_DIM, SPACE_DIM >.

Definition at line 46 of file PopulationTestingForce.cpp.

References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetNode(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), and PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::mWithPositionDependence.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

c_vector< double, SPACE_DIM > PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::GetExpectedOneStepLocationAM2	(	unsigned	nodeIndex,
		double	damping,
		c_vector< double, SPACE_DIM > &	oldLocation,
		double	dt
	)

Helper method to return the expected step location for AdamsMoultonNumericalMethod.

Returns: the expected location after one step

Parameters

nodeIndex	the index of the node
damping	the damping constant
oldLocation	the old location of the node
dt	the step size

Definition at line 108 of file PopulationTestingForce.cpp.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

c_vector< double, SPACE_DIM > PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::GetExpectedOneStepLocationBE	(	unsigned	nodeIndex,
		double	damping,
		c_vector< double, SPACE_DIM > &	oldLocation,
		double	dt
	)

Helper method to return the expected step location for BackwardEulerNumericalMethod.

Returns: the expected location after one step

Parameters

nodeIndex	the index of the node
damping	the damping constant
oldLocation	the old location of the node
dt	the step size

Definition at line 122 of file PopulationTestingForce.cpp.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

c_vector< double, SPACE_DIM > PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::GetExpectedOneStepLocationFE	(	unsigned	nodeIndex,
		double	damping,
		c_vector< double, SPACE_DIM > &	oldLocation,
		double	dt
	)

Helper method to return the expected step location for ForwardEulerNumericalMethod.

Returns: the expected location after one step

Parameters

nodeIndex	the index of the node
damping	the damping constant
oldLocation	the old location of the node
dt	the step size

Definition at line 69 of file PopulationTestingForce.cpp.

References PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::mWithPositionDependence.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

c_vector< double, SPACE_DIM > PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::GetExpectedOneStepLocationRK4	(	unsigned	nodeIndex,
		double	damping,
		c_vector< double, SPACE_DIM > &	oldLocation,
		double	dt
	)

Helper method to return the expected step location for RK4NumericalMethod.

Returns: the expected location after one step

Parameters

nodeIndex	the index of the node
damping	the damping constant
oldLocation	the old location of the node
dt	the step size

Definition at line 90 of file PopulationTestingForce.cpp.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::OutputForceParameters ( out_stream & rParamsFile )

virtual

Overridden OutputForceParameters() method.

Parameters

rParamsFile the file stream to which the parameters are output

Implements AbstractForce< ELEMENT_DIM, SPACE_DIM >.

Definition at line 136 of file PopulationTestingForce.cpp.

References EXPORT_TEMPLATE_CLASS_ALL_DIMS, and NEVER_REACHED.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM = ELEMENT_DIM>

template<class Archive >

void PopulationTestingForce< ELEMENT_DIM, SPACE_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 65 of file PopulationTestingForce.hpp.

References PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::mWithPositionDependence.

Friends And Related Function Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM = ELEMENT_DIM>

friend class boost::serialization::access

friend

Archiving.

Definition at line 55 of file PopulationTestingForce.hpp.

Member Data Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM = ELEMENT_DIM>

bool PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::mWithPositionDependence

private

Whether the applied force should depend on the position of the node, or only its index Defaults to true, since that's better for testing a variety of numerical methods. Crypt tests require a position independent test force though.

Definition at line 76 of file PopulationTestingForce.hpp.

Referenced by PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::AddForceContribution(), PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::GetExpectedOneStepLocationFE(), and PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >::serialize().

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

cell_based/src/fortests/PopulationTestingForce.hpp
cell_based/src/fortests/PopulationTestingForce.cpp

Public Member Functions

Private Member Functions

Private Attributes

Friends

Detailed Description

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM = ELEMENT_DIM> class PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >

Constructor & Destructor Documentation

Member Function Documentation

Friends And Related Function Documentation

Member Data Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM = ELEMENT_DIM>
class PopulationTestingForce< ELEMENT_DIM, SPACE_DIM >