DiffusionForce< DIM > Class Template Reference

#include <DiffusionForce.hpp>

Inheritance diagram for DiffusionForce< DIM >:

Collaboration diagram for DiffusionForce< DIM >:

Public Member Functions
	DiffusionForce ()
	~DiffusionForce ()
void	SetAbsoluteTemperature (double absoluteTemperature)
void	SetViscosity (double viscosity)
double	GetAbsoluteTemperature ()
double	GetViscosity ()
double	GetDiffusionScalingConstant ()
void	AddForceContribution (AbstractCellPopulation< DIM > &rCellPopulation)
void	OutputForceParameters (out_stream &rParamsFile)
Public Member Functions inherited from AbstractForce< DIM >
	AbstractForce ()
virtual	~AbstractForce ()
virtual void	AddForceContribution (AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > &rCellPopulation)=0
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
double	mAbsoluteTemperature
double	mViscosity

Static Private Attributes
static const double	msBoltzmannConstant = 4.97033568e-7

Friends
class	boost::serialization::access

Detailed Description

template<unsigned DIM>
class DiffusionForce< DIM >

A 'diffusion force' class to model the random movement of nodes.

This class works with all off-lattice cell populations.

Definition at line 52 of file DiffusionForce.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>

DiffusionForce< DIM >::DiffusionForce

(

)

Constructor.

Definition at line 44 of file DiffusionForce.cpp.

template<unsigned DIM>

DiffusionForce< DIM >::~DiffusionForce

(

)

Destructor.

Definition at line 52 of file DiffusionForce.cpp.

Member Function Documentation

template<unsigned DIM>

void DiffusionForce< DIM >::AddForceContribution

(

AbstractCellPopulation< DIM > &

rCellPopulation

)

Overridden AddForceContribution() method. Note that this method requires cell/node radii to be set.

Parameters

rCellPopulation

reference to the tissue

Definition at line 89 of file DiffusionForce.cpp.

References EXCEPTION, AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNodeIteratorBegin(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNodeIteratorEnd(), SimulationTime::GetTimeStep(), SimulationTime::Instance(), RandomNumberGenerator::Instance(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::rGetMesh(), and RandomNumberGenerator::StandardNormalRandomDeviate().

template<unsigned DIM>

double DiffusionForce< DIM >::GetAbsoluteTemperature

(

)

Get the absolute temperature.

Returns

mAbsoluteTemperature

Definition at line 64 of file DiffusionForce.cpp.

template<unsigned DIM>

double DiffusionForce< DIM >::GetDiffusionScalingConstant

(

)

Calculate the scaling of the diffusion constant

Returns

the scaled diffusion constant.

Definition at line 83 of file DiffusionForce.cpp.

template<unsigned DIM>

double DiffusionForce< DIM >::GetViscosity

(

)

Get the viscosity.

Returns

mViscosity

Definition at line 77 of file DiffusionForce.cpp.

template<unsigned DIM>

void DiffusionForce< DIM >::OutputForceParameters ( out_stream &  rParamsFile )

virtual

Overridden OutputForceParameters() method.

Parameters

rParamsFile

the file stream to which the parameters are output

Implements AbstractForce< DIM >.

Definition at line 143 of file DiffusionForce.cpp.

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

template<unsigned DIM>

template<class Archive >

void DiffusionForce< 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 86 of file DiffusionForce.hpp.

References DiffusionForce< DIM >::mAbsoluteTemperature, and DiffusionForce< DIM >::mViscosity.

template<unsigned DIM>

void DiffusionForce< DIM >::SetAbsoluteTemperature

(

double

absoluteTemperature

)

Set the absolute temperature, which affects the diffusion constant.

Parameters

absoluteTemperature

the temperature in Kelvin

Definition at line 57 of file DiffusionForce.cpp.

template<unsigned DIM>

void DiffusionForce< DIM >::SetViscosity

(

double

viscosity

)

Set the media viscosity (dynamic), which affects the diffusion constant.

Parameters

viscosity

the viscosity

Definition at line 70 of file DiffusionForce.cpp.

Friends And Related Function Documentation

template<unsigned DIM>

friend class boost::serialization::access

friend

Archiving.

Definition at line 77 of file DiffusionForce.hpp.

Member Data Documentation

template<unsigned DIM>

double DiffusionForce< DIM >::mAbsoluteTemperature

private

Absolute temperature (in Kelvin).

Definition at line 59 of file DiffusionForce.hpp.

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

template<unsigned DIM>

const double DiffusionForce< DIM >::msBoltzmannConstant = 4.97033568e-7

staticprivate

The Boltzmann constant, which takes the value 4.97033568e-7 (10 microns)^2 kg h^(-2) K^(-1).

Definition at line 72 of file DiffusionForce.hpp.

template<unsigned DIM>

double DiffusionForce< DIM >::mViscosity

private

Viscosity of media. We assume that this is measured in units of kg (10 microns)^(-1) h^(-1), and that cell diameters are scaled with a characteristic length of 10 microns.

Definition at line 66 of file DiffusionForce.hpp.

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

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

• cell_based/src/population/forces/DiffusionForce.hpp
• cell_based/src/population/forces/DiffusionForce.cpp