#include <LegacyCellProliferativeTypesWriter.hpp>

Inheritance diagram for LegacyCellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM >:

Collaboration diagram for LegacyCellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM >:

Public Member Functions
	LegacyCellProliferativeTypesWriter ()

double	GetCellDataForVtkOutput (CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)

virtual void	VisitCell (CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)

Public Member Functions inherited from AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >
	AbstractCellWriter (const std::string &rFileName)

virtual c_vector< double, SPACE_DIM >	GetVectorCellDataForVtkOutput (CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)

bool	GetOutputScalarData ()

bool	GetOutputVectorData ()

void	SetVtkCellDataName (std::string vtkCellDataName)

void	SetVtkVectorCellDataName (std::string vtkCellDataName)

std::string	GetVtkCellDataName ()

std::string	GetVtkVectorCellDataName ()

Public Member Functions inherited from AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >
	AbstractCellBasedWriter (const std::string &rFileName)

virtual	~AbstractCellBasedWriter ()

void	CloseFile ()

virtual void	OpenOutputFile (OutputFileHandler &rOutputFileHandler)

void	OpenOutputFileForAppend (OutputFileHandler &rOutputFileHandler)

virtual void	WriteTimeStamp ()

virtual void	WriteNewline ()

void	SetFileName (std::string fileName)

std::string	GetFileName ()

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

Additional Inherited Members
Protected Attributes inherited from AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >
bool	mOutputScalarData

bool	mOutputVectorData

std::string	mVtkCellDataName

std::string	mVtkVectorCellDataName

Protected Attributes inherited from AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >
std::string	mFileName

out_stream	mpOutStream

Detailed Description

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class LegacyCellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM >

A class written using the visitor pattern for writing cell proliferative types to file.

Note this version will overwitew cell color if the cell is lableled or mutant for use in the Java Vizialiser.

The output file is called results.vizcelltypes by default. If VTK is switched on, then the writer also specifies the VTK output for each cell, which is stored in the VTK cell data "Cell types" by default.

Definition at line 54 of file LegacyCellProliferativeTypesWriter.hpp.

Constructor & Destructor Documentation

◆ LegacyCellProliferativeTypesWriter()

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

LegacyCellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM >::LegacyCellProliferativeTypesWriter ( )

Default constructor.

Definition at line 44 of file LegacyCellProliferativeTypesWriter.cpp.

References AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >::mVtkCellDataName.

Member Function Documentation

◆ GetCellDataForVtkOutput()

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

double LegacyCellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM >::GetCellDataForVtkOutput	(	CellPtr	pCell,
		AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *	pCellPopulation
	)

virtual

Overridden GetCellDataForVtkOutput() method.

Get a double associated with a cell. This method reduces duplication of code between the methods VisitCell() and AddVtkData().

Parameters

pCell	a cell
pCellPopulation	a pointer to the cell population owning the cell

Returns: data associated with the cell

Todo:: : replace this hard-coded 6 with the ApoptoticCellProperty member mColour?

Reimplemented from AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 51 of file LegacyCellProliferativeTypesWriter.cpp.

References CellPropertyCollection::GetProperties(), and CellPropertyCollection::GetProperty().

◆ serialize()

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

template<class Archive >

void LegacyCellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM >::serialize	(	Archive &	archive,
		const unsigned int	version
	)

inlineprivate

Serialize the object and its member variables.

Parameters

archive	the archive
version	the current version of this class

Definition at line 66 of file LegacyCellProliferativeTypesWriter.hpp.

◆ VisitCell()

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void LegacyCellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM >::VisitCell	(	CellPtr	pCell,
		AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *	pCellPopulation
	)

virtual

Overridden VisitCell() method.

Visit a cell and write its proliferative type, as given by this property's member mColour.

Outputs a line of space-separated values of the form: ...[cell proliferative type] ...

Note that if the cell is undergoing apoptosis (i.e. has the property ApoptoticCellProperty), then the hard-coded value 6 is written. If instead the cell is labelled (i.e. has the property CellLabel), then this property's member mColour is instead written. Lastly, if the cell has a mutation state other than WildTypeCellMutationState, then this property's member mColour is instead written.

This is appended to the output written by AbstractCellBasedWriter, which is a single value [present simulation time], followed by a tab.

Parameters