Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
Public Member Functions | Private Member Functions | Private Attributes | Friends | List of all members
BuskeCompressionForce< DIM > Class Template Reference

#include <BuskeCompressionForce.hpp>

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

Public Member Functions

 BuskeCompressionForce ()
 
double GetCompressionEnergyParameter ()
 
void SetCompressionEnergyParameter (double compressionEnergyParameter)
 
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, SPACE_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 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

◆ BuskeCompressionForce()

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

Constructor.

Definition at line 40 of file BuskeCompressionForce.cpp.

Member Function Documentation

◆ AddForceContribution()

template<unsigned DIM>
void BuskeCompressionForce< DIM >::AddForceContribution ( AbstractCellPopulation< DIM > &  rCellPopulation)

Overridden AddForceContribution() method.

Parameters
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 Node< SPACE_DIM >::AddAppliedForceContribution(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::Begin(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::End(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationIndexUsingCell(), NodeBasedCellPopulation< DIM >::GetNeighbouringNodeIndices(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetNode(), Node< SPACE_DIM >::GetRadius(), and Node< SPACE_DIM >::rGetLocation().

◆ GetCompressionEnergyParameter()

template<unsigned DIM>
double BuskeCompressionForce< DIM >::GetCompressionEnergyParameter ( )
Returns
mCompressionEnergyParameter.

Definition at line 47 of file BuskeCompressionForce.cpp.

◆ OutputForceParameters()

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 142 of file BuskeCompressionForce.cpp.

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

◆ serialize()

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

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

Parameters
archiveThe boost archive.
versionThe current version of this class.

Definition at line 69 of file BuskeCompressionForce.hpp.

References BuskeCompressionForce< DIM >::mCompressionEnergyParameter.

◆ SetCompressionEnergyParameter()

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 Symbol Documentation

◆ boost::serialization::access

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

Definition at line 60 of file BuskeCompressionForce.hpp.

◆ TestForcesNotForRelease

template<unsigned DIM>
friend class TestForcesNotForRelease
friend

Definition at line 57 of file BuskeCompressionForce.hpp.

Member Data Documentation

◆ mCompressionEnergyParameter

template<unsigned DIM>
double BuskeCompressionForce< DIM >::mCompressionEnergyParameter
private
Returns
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 84 of file BuskeCompressionForce.hpp.

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

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