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

#include <DeltaNotchOffLatticeSimulation.hpp>

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

List of all members.

Public Member Functions

 DeltaNotchOffLatticeSimulation (AbstractCellPopulation< DIM > &rCellPopulation, bool deleteCellPopulationInDestructor=false, bool initialiseCells=true)
 ~DeltaNotchOffLatticeSimulation ()

Public Attributes

out_stream mVizDeltaFile

Private Member Functions

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

Friends

class boost::serialization::access

Detailed Description

template<unsigned DIM>
class DeltaNotchOffLatticeSimulation< DIM >

Subclass of OffLatticeSimulation in which the mean levels of Delta in neighbouring cells are computed and stored in CellData for use in DeltaNotchOdeSystem in a centre-based cell population.

Definition at line 50 of file DeltaNotchOffLatticeSimulation.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>
DeltaNotchOffLatticeSimulation< DIM >::DeltaNotchOffLatticeSimulation ( AbstractCellPopulation< DIM > &  rCellPopulation,
bool  deleteCellPopulationInDestructor = false,
bool  initialiseCells = true 
)

Default constructor.

Parameters:
rCellPopulationA cell population facade class (contains a mesh and cells)
deleteCellPopulationInDestructorWhether to delete the cell population on destruction to free up memory (defaults to false)
initialiseCellswhether to initialise cells (defaults to true, set to false when loading from an archive)

Definition at line 43 of file DeltaNotchOffLatticeSimulation.cpp.

template<unsigned DIM>
DeltaNotchOffLatticeSimulation< DIM >::~DeltaNotchOffLatticeSimulation ( )

Destructor.

Definition at line 51 of file DeltaNotchOffLatticeSimulation.cpp.

Member Function Documentation

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

Archive the object and its member variables.

Parameters:
archivethe archive
versionthe current version of this class

Reimplemented from OffLatticeSimulation< DIM >.

Definition at line 63 of file DeltaNotchOffLatticeSimulation.hpp.

template<unsigned DIM>
void DeltaNotchOffLatticeSimulation< DIM >::SetupSolve ( ) [private, virtual]

Overridden SetupSolve() method. Calls UpdateCellData().

Reimplemented from OffLatticeSimulation< DIM >.

Definition at line 56 of file DeltaNotchOffLatticeSimulation.cpp.

References OffLatticeSimulation< ELEMENT_DIM, SPACE_DIM >::SetupSolve().

template<unsigned DIM>
void DeltaNotchOffLatticeSimulation< DIM >::UpdateAtEndOfTimeStep ( ) [private, virtual]

Overridden UpdateAtEndOfTimeStep() method.

Reimplemented from AbstractCellBasedSimulation< ELEMENT_DIM, ELEMENT_DIM >.

Definition at line 63 of file DeltaNotchOffLatticeSimulation.cpp.

References AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::UpdateAtEndOfTimeStep().

template<unsigned DIM>
void DeltaNotchOffLatticeSimulation< DIM >::UpdateCellData ( ) [private]

Compute the volume of each cell in the population and store these in CellData.

Definition at line 70 of file DeltaNotchOffLatticeSimulation.cpp.

References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::Begin(), DeltaNotchCellCycleModel::GetDelta(), VertexMesh< ELEMENT_DIM, SPACE_DIM >::GetNeighbouringElementIndices(), DeltaNotchCellCycleModel::GetNotch(), NEVER_REACHED, and VertexBasedCellPopulation< DIM >::rGetMesh().

Friends And Related Function Documentation

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

Needed for serialization.

Reimplemented from OffLatticeSimulation< DIM >.

Definition at line 55 of file DeltaNotchOffLatticeSimulation.hpp.

Member Data Documentation

template<unsigned DIM>
out_stream DeltaNotchOffLatticeSimulation< DIM >::mVizDeltaFile

The file that the values of beta catenin is written out to.

Definition at line 86 of file DeltaNotchOffLatticeSimulation.hpp.

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