Chaste Release::3.1
Public Member Functions | Private Member Functions | Private Attributes | Friends
BuskeCompressionForce< DIM > Class Template Reference

#include <BuskeCompressionForce.hpp>

Inheritance diagram for BuskeCompressionForce< DIM >:
Collaboration diagram for BuskeCompressionForce< DIM >:

List of all members.

Public Member Functions

 BuskeCompressionForce ()
double GetCompressionEnergyParameter ()
void SetCompressionEnergyParameter (double compressionEnergyParameter)
void AddForceContribution (std::vector< c_vector< double, DIM > > &rForces, AbstractCellPopulation< DIM > &rCellPopulation)
void OutputForceParameters (out_stream &rParamsFile)

Private Member Functions

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

Private Attributes

double mCompressionEnergyParameter

Friends

class TestForcesNotForRelease
class boost::serialization::access

Detailed Description

template<unsigned DIM>
class BuskeCompressionForce< DIM >

A force law employed by Buske et al (2011) in their overlapping spheres model of the intestinal crypt (doi:10.1371/journal.pcbi.1001045).

Length is scaled by natural length.

Todo:
does this mean natural radius of a cell? If so at what age? (#1764) Time is in hours.

This class specifically calculates the compression force which forms part of equation (A6) in the Buske paper.

Definition at line 55 of file BuskeCompressionForce.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>
BuskeCompressionForce< DIM >::BuskeCompressionForce ( )

Constructor.

Definition at line 40 of file BuskeCompressionForce.cpp.

Member Function Documentation

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

Overridden AddForceContribution() method.

Parameters:
rForcesa vector of forces on notes
rCellPopulationa cell population object

Target volume of the cell

Todo:
Doesn't say in the Buske paper how they calculate this, so we need to look at this to be sure it's what we want (#1764)

Definition at line 59 of file BuskeCompressionForce.cpp.

References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::Begin(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::End(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationIndexUsingCell(), NodeBasedCellPopulation< DIM >::GetNeighbouringNodeIndices(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetNode().

template<unsigned DIM>
double BuskeCompressionForce< DIM >::GetCompressionEnergyParameter ( )

Get mCompressionEnergyParameter.

Definition at line 47 of file BuskeCompressionForce.cpp.

template<unsigned DIM>
void BuskeCompressionForce< DIM >::OutputForceParameters ( out_stream &  rParamsFile) [virtual]

Overridden OutputForceParameters() method.

Parameters:
rParamsFilethe file stream to which the parameters are output

Implements AbstractForce< DIM >.

Definition at line 139 of file BuskeCompressionForce.cpp.

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

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

Serialize the object.

Parameters:
archivethe archive
versionthe current version of this class

Reimplemented from AbstractForce< DIM >.

Definition at line 62 of file BuskeCompressionForce.hpp.

References BuskeCompressionForce< DIM >::mCompressionEnergyParameter.

template<unsigned DIM>
void BuskeCompressionForce< DIM >::SetCompressionEnergyParameter ( double  compressionEnergyParameter)

Set mCompressionEnergyParameter.

Parameters:
compressionEnergyParameterthe new value of mCompressionEnergyParameter

Definition at line 53 of file BuskeCompressionForce.cpp.

Friends And Related Function Documentation

template<unsigned DIM>
friend class boost::serialization::access [friend]

Needed for serialization.

Reimplemented from AbstractForce< DIM >.

Definition at line 60 of file BuskeCompressionForce.hpp.

Member Data Documentation

template<unsigned DIM>
double BuskeCompressionForce< DIM >::mCompressionEnergyParameter [private]

Compression energy parameter.

Represented by the parameter K in the model by Buske et al (2011) in their off-lattice model of the intestinal crypt (doi:10.1371/journal.pcbi.1001045).

Note: K is the bulk modulus of the spheres.

Definition at line 77 of file BuskeCompressionForce.hpp.

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

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