Chaste Commit::baa90ac2819b962188b7562f2326be23c47859a7
BuskeAdhesiveForce< DIM > Class Template Reference

#include <BuskeAdhesiveForce.hpp>

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

Public Member Functions

 BuskeAdhesiveForce ()
 
double GetAdhesionEnergyParameter ()
 
void SetAdhesionEnergyParameter (double adhesionEnergyParameter)
 
c_vector< double, DIM > CalculateForceBetweenNodes (unsigned nodeAGlobalIndex, unsigned nodeBGlobalIndex, AbstractCellPopulation< DIM > &rCellPopulation)
 
double GetMagnitudeOfForce (double distanceBetweenNodes, double radiusOfCellOne, double radiusOfCellTwo)
 
virtual void OutputForceParameters (out_stream &rParamsFile)
 
- Public Member Functions inherited from AbstractTwoBodyInteractionForce< DIM >
 AbstractTwoBodyInteractionForce ()
 
bool GetUseCutOffLength ()
 
void SetCutOffLength (double cutOffLength)
 
double GetCutOffLength ()
 
virtual c_vector< double, SPACE_DIM > CalculateForceBetweenNodes (unsigned nodeAGlobalIndex, unsigned nodeBGlobalIndex, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)=0
 
void AddForceContribution (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)
 
virtual void WriteDataToVisualizerSetupFile (out_stream &pVizSetupFile)
 
- Public Member Functions inherited from AbstractForce< ELEMENT_DIM, SPACE_DIM >
 AbstractForce ()
 
virtual ~AbstractForce ()
 
void OutputForceInfo (out_stream &rParamsFile)
 
- 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 mAdhesionEnergyParameter
 

Friends

class TestForcesNotForRelease
 
class boost::serialization::access
 

Additional Inherited Members

- Protected Attributes inherited from AbstractTwoBodyInteractionForce< DIM >
bool mUseCutOffLength
 
double mMechanicsCutOffLength
 

Detailed Description

template<unsigned DIM>
class BuskeAdhesiveForce< 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.

Definition at line 52 of file BuskeAdhesiveForce.hpp.

Constructor & Destructor Documentation

◆ BuskeAdhesiveForce()

Constructor.

Definition at line 39 of file BuskeAdhesiveForce.cpp.

Member Function Documentation

◆ CalculateForceBetweenNodes()

template<unsigned DIM>
c_vector< double, DIM > BuskeAdhesiveForce< DIM >::CalculateForceBetweenNodes ( unsigned  nodeAGlobalIndex,
unsigned  nodeBGlobalIndex,
AbstractCellPopulation< DIM > &  rCellPopulation 
)
Returns
the force between two nodes.

Note that this assumes they are connected and is called by rCalculateVelocitiesOfEachNode()

Parameters
nodeAGlobalIndexindex of one neighbouring node
nodeBGlobalIndexindex of the other neighbouring node
rCellPopulationthe cell population

Definition at line 58 of file BuskeAdhesiveForce.cpp.

References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetNode(), Node< SPACE_DIM >::GetRadius(), and Node< SPACE_DIM >::rGetLocation().

◆ GetAdhesionEnergyParameter()

template<unsigned DIM>
double BuskeAdhesiveForce< DIM >::GetAdhesionEnergyParameter ( )
Returns
mAdhesionEnergyParameter.

Definition at line 46 of file BuskeAdhesiveForce.cpp.

◆ GetMagnitudeOfForce()

template<unsigned DIM>
double BuskeAdhesiveForce< DIM >::GetMagnitudeOfForce ( double  distanceBetweenNodes,
double  radiusOfCellOne,
double  radiusOfCellTwo 
)
Returns
Calculated magnitude of the force between two nodes that are a given distance apart and are associated with given cell radii.
Parameters
distanceBetweenNodesthe distance between two nodes
radiusOfCellOneradius of a cell
radiusOfCellTworadius of a cell

Definition at line 107 of file BuskeAdhesiveForce.cpp.

◆ OutputForceParameters()

template<unsigned DIM>
void BuskeAdhesiveForce< DIM >::OutputForceParameters ( out_stream &  rParamsFile)
virtual

Overridden OutputForceParameters() method.

Parameters
rParamsFilethe file stream to which the parameters are output

Reimplemented from AbstractTwoBodyInteractionForce< DIM >.

Definition at line 124 of file BuskeAdhesiveForce.cpp.

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

◆ serialize()

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

Archive the object and its member variables.

Parameters
archivethe archive
versionthe current version of this class

Definition at line 66 of file BuskeAdhesiveForce.hpp.

References BuskeAdhesiveForce< DIM >::mAdhesionEnergyParameter.

◆ SetAdhesionEnergyParameter()

template<unsigned DIM>
void BuskeAdhesiveForce< DIM >::SetAdhesionEnergyParameter ( double  adhesionEnergyParameter)

Set mAdhesionEnergyParameter.

Parameters
adhesionEnergyParameterthe new value of mAdhesionEnergyParameter

Definition at line 52 of file BuskeAdhesiveForce.cpp.

Friends And Related Symbol Documentation

◆ boost::serialization::access

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

Needed for serialization.

Definition at line 58 of file BuskeAdhesiveForce.hpp.

◆ TestForcesNotForRelease

template<unsigned DIM>
friend class TestForcesNotForRelease
friend

Definition at line 54 of file BuskeAdhesiveForce.hpp.

Member Data Documentation

◆ mAdhesionEnergyParameter

template<unsigned DIM>
double BuskeAdhesiveForce< DIM >::mAdhesionEnergyParameter
private

Adhesion energy parameter.

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

Definition at line 79 of file BuskeAdhesiveForce.hpp.

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


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