Chaste  Release::2018.1
BuskeElasticForce< DIM > Class Template Reference

#include <BuskeElasticForce.hpp>

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

Public Member Functions

 BuskeElasticForce ()
 
double GetDeformationEnergyParameter ()
 
void SetDeformationEnergyParameter (double deformationEnergyParameter)
 
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,
ELEMENT_DIM > 
CalculateForceBetweenNodes (unsigned nodeAGlobalIndex, unsigned nodeBGlobalIndex, AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > &rCellPopulation)=0
 
void AddForceContribution (AbstractCellPopulation< ELEMENT_DIM, ELEMENT_DIM > &rCellPopulation)
 
virtual void WriteDataToVisualizerSetupFile (out_stream &pVizSetupFile)
 
- Public Member Functions inherited from AbstractForce< ELEMENT_DIM, ELEMENT_DIM >
 AbstractForce ()
 
virtual ~AbstractForce ()
 
virtual void AddForceContribution (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)=0
 
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 mDeformationEnergyParameter
 

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 BuskeElasticForce< 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 BuskeElasticForce.hpp.

Constructor & Destructor Documentation

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

Constructor.

Definition at line 39 of file BuskeElasticForce.cpp.

Member Function Documentation

template<unsigned DIM>
c_vector< double, DIM > BuskeElasticForce< 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 BuskeElasticForce.cpp.

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

template<unsigned DIM>
double BuskeElasticForce< DIM >::GetDeformationEnergyParameter ( )
Returns
mDeformationEnergyParameter.

Definition at line 46 of file BuskeElasticForce.cpp.

template<unsigned DIM>
double BuskeElasticForce< 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 108 of file BuskeElasticForce.cpp.

template<unsigned DIM>
void BuskeElasticForce< 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 128 of file BuskeElasticForce.cpp.

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

template<unsigned DIM>
template<class Archive >
void BuskeElasticForce< 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 BuskeElasticForce.hpp.

References BuskeElasticForce< DIM >::mDeformationEnergyParameter.

template<unsigned DIM>
void BuskeElasticForce< DIM >::SetDeformationEnergyParameter ( double  deformationEnergyParameter)

Set mDeformationEnergyParameter.

Parameters
deformationEnergyParameterthe new value of mDeformationEnergyParameter

Definition at line 52 of file BuskeElasticForce.cpp.

Friends And Related Function Documentation

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

Needed for serialization.

Definition at line 58 of file BuskeElasticForce.hpp.

Member Data Documentation

template<unsigned DIM>
double BuskeElasticForce< DIM >::mDeformationEnergyParameter
private

Deformation energy parameter.

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

Note: D=3/2(1-nu^2)/E

Where E is the Young Modulus and nu is the Poisson ratio of cells

Definition at line 83 of file BuskeElasticForce.hpp.

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


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