#include <DeltaNotchEdgeTrackingModifier.hpp>

Inheritance diagram for DeltaNotchEdgeTrackingModifier< DIM >:

Collaboration diagram for DeltaNotchEdgeTrackingModifier< DIM >:

Public Member Functions
	DeltaNotchEdgeTrackingModifier ()

virtual	~DeltaNotchEdgeTrackingModifier ()

virtual void	UpdateAtEndOfTimeStep (AbstractCellPopulation< DIM, DIM > &rCellPopulation)

virtual void	SetupSolve (AbstractCellPopulation< DIM, DIM > &rCellPopulation, std::string outputDirectory)

void	UpdateCellData (AbstractCellPopulation< DIM, DIM > &rCellPopulation)

void	OutputSimulationModifierParameters (out_stream &rParamsFile)

Public Member Functions inherited from AbstractCellBasedSimulationModifier< DIM, DIM >
	AbstractCellBasedSimulationModifier ()

virtual	~AbstractCellBasedSimulationModifier ()

virtual void	UpdateAtEndOfTimeStep (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)=0

virtual void	UpdateAtEndOfOutputTimeStep (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)

virtual void	SetupSolve (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation, std::string outputDirectory)=0

virtual void	UpdateAtEndOfSolve (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)

void	OutputSimulationModifierInfo (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)

Friends
class	boost::serialization::access

Detailed Description

template<unsigned DIM>
class DeltaNotchEdgeTrackingModifier< DIM >

A modifier class in which the mean levels of Delta in neighbouring cells are computed and stored in CellData. To be used in conjunction with Delta Notch cell cycle models.

Definition at line 51 of file DeltaNotchEdgeTrackingModifier.hpp.

Constructor & Destructor Documentation

◆ DeltaNotchEdgeTrackingModifier()

template<unsigned DIM>

DeltaNotchEdgeTrackingModifier< DIM >::DeltaNotchEdgeTrackingModifier ( )

Default constructor.

Definition at line 41 of file DeltaNotchEdgeTrackingModifier.cpp.

◆ ~DeltaNotchEdgeTrackingModifier()

template<unsigned DIM>

DeltaNotchEdgeTrackingModifier< DIM >::~DeltaNotchEdgeTrackingModifier ( )

virtual

Destructor.

Definition at line 47 of file DeltaNotchEdgeTrackingModifier.cpp.

Member Function Documentation

◆ OutputSimulationModifierParameters()

template<unsigned DIM>

void DeltaNotchEdgeTrackingModifier< DIM >::OutputSimulationModifierParameters ( out_stream & rParamsFile )

virtual

Overridden OutputSimulationModifierParameters() method. Output any simulation modifier parameters to file.

Parameters

rParamsFile the file stream to which the parameters are output

Implements AbstractCellBasedSimulationModifier< DIM, DIM >.

Definition at line 132 of file DeltaNotchEdgeTrackingModifier.cpp.

References AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM >::OutputSimulationModifierParameters().

◆ serialize()

template<unsigned DIM>

template<class Archive >

void DeltaNotchEdgeTrackingModifier< DIM >::serialize	(	Archive &	archive,
		const unsigned int	version
	)

inlineprivate

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

Parameters

archive	The boost archive.
version	The current version of this class.

Definition at line 64 of file DeltaNotchEdgeTrackingModifier.hpp.

◆ SetupSolve()

template<unsigned DIM>

void DeltaNotchEdgeTrackingModifier< DIM >::SetupSolve	(	AbstractCellPopulation< DIM, DIM > &	rCellPopulation,
		std::string	outputDirectory
	)

virtual

Overridden SetupSolve() method.

Specifies what to do in the simulation before the start of the time loop.

Parameters

rCellPopulation	reference to the cell population
outputDirectory	the output directory, relative to where Chaste output is stored

Definition at line 59 of file DeltaNotchEdgeTrackingModifier.cpp.

◆ UpdateAtEndOfTimeStep()

template<unsigned DIM>

void DeltaNotchEdgeTrackingModifier< DIM >::UpdateAtEndOfTimeStep ( AbstractCellPopulation< DIM, DIM > & rCellPopulation )

virtual

Overridden UpdateAtEndOfTimeStep() method.

Specifies what to do in the simulation at the end of each time step.

Parameters

rCellPopulation reference to the cell population

Definition at line 52 of file DeltaNotchEdgeTrackingModifier.cpp.

◆ UpdateCellData()

template<unsigned DIM>

void DeltaNotchEdgeTrackingModifier< DIM >::UpdateCellData ( AbstractCellPopulation< DIM, DIM > & rCellPopulation )

Helper method to compute the mean level of Delta in each cell's neighbours and store these in the CellData.

Note: If using a CaBasedCellPopulation, we assume a Moore neighbourhood and unit carrying capacity. If a cell has no neighbours (such as an isolated cell in a CaBasedCellPopulation), we store the value -1 in the CellData.

Parameters

rCellPopulation reference to the cell population

Definition at line 69 of file DeltaNotchEdgeTrackingModifier.cpp.

References AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::Begin(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::End(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetCellUsingLocationIndex(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetNeighbouringEdgeIndices(), and CellSrnModel::GetNumEdgeSrn().

Friends And Related Symbol Documentation

◆ boost::serialization::access

template<unsigned DIM>

friend class boost::serialization::access

friend

Needed for serialization.

Definition at line 55 of file DeltaNotchEdgeTrackingModifier.hpp.

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

cell_based/src/simulation/modifiers/DeltaNotchEdgeTrackingModifier.hpp
cell_based/src/simulation/modifiers/DeltaNotchEdgeTrackingModifier.cpp

Public Member Functions

Private Member Functions

Friends

Detailed Description

Constructor & Destructor Documentation

◆ DeltaNotchEdgeTrackingModifier()

◆ ~DeltaNotchEdgeTrackingModifier()

Member Function Documentation

◆ OutputSimulationModifierParameters()

◆ serialize()

◆ SetupSolve()

◆ UpdateAtEndOfTimeStep()

◆ UpdateCellData()

Friends And Related Symbol Documentation

◆ boost::serialization::access