#include <CellMutationStatesCountWriter.hpp>

Inheritance diagram for CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >:

Collaboration diagram for CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >:

Public Member Functions
	CellMutationStatesCountWriter ()

virtual void	WriteHeader (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)

void	VisitAnyPopulation (AbstractCellPopulation< SPACE_DIM, SPACE_DIM > *pCellPopulation)

virtual void	Visit (MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)

virtual void	Visit (CaBasedCellPopulation< SPACE_DIM > *pCellPopulation)

virtual void	Visit (NodeBasedCellPopulation< SPACE_DIM > *pCellPopulation)

virtual void	Visit (PottsBasedCellPopulation< SPACE_DIM > *pCellPopulation)

virtual void	Visit (VertexBasedCellPopulation< SPACE_DIM > *pCellPopulation)

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

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 AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >
std::string	mFileName

out_stream	mpOutStream

Detailed Description

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

A class written using the visitor pattern for writing cell mutations states from a cell population to file.

The output file is called cellmutationstates.dat by default.

Definition at line 49 of file CellMutationStatesCountWriter.hpp.

Constructor & Destructor Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::CellMutationStatesCountWriter ( )

Default constructor.

Definition at line 45 of file CellMutationStatesCountWriter.cpp.

Member Function Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

template<class Archive >

void CellMutationStatesCountWriter< 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 61 of file CellMutationStatesCountWriter.hpp.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit ( MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > * pCellPopulation )

virtual

Visit the population and write the number of cells in the population that have each mutation state.

Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...

where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().

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

Parameters

pCellPopulation a pointer to the MeshBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 88 of file CellMutationStatesCountWriter.cpp.

References PetscTools::AmMaster(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetCellMutationStateCount().

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit ( CaBasedCellPopulation< SPACE_DIM > * pCellPopulation )

virtual

Visit the population and write the number of cells in the population that have each mutation state.

Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...

where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().

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

Parameters

pCellPopulation a pointer to the CaBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 102 of file CellMutationStatesCountWriter.cpp.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit ( NodeBasedCellPopulation< SPACE_DIM > * pCellPopulation )

virtual

Visit the population and write the number of cells in the population that have each mutation state.

Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...

where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().

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

Parameters

pCellPopulation a pointer to the NodeBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 108 of file CellMutationStatesCountWriter.cpp.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit ( PottsBasedCellPopulation< SPACE_DIM > * pCellPopulation )

virtual

Visit the population and write the number of cells in the population that have each mutation state.

Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...

where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().

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

Parameters

pCellPopulation a pointer to the PottsBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 114 of file CellMutationStatesCountWriter.cpp.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit ( VertexBasedCellPopulation< SPACE_DIM > * pCellPopulation )

virtual

Visit the population and write the number of cells in the population that have each mutation state.

Outputs a line of tab-separated values of the form: [num mutation state 0] [num mutation state 1] [num mutation state 2] ...

where [num mutation state 0] denotes the number of cells in the population that have the mutation state with index 0 in the registry of cell properties, and so on. These counts are computed through the cell population method GetCellMutationStateCount(). The ordering of mutation states is usually specified by the cell population method SetDefaultCellMutationStateAndProliferativeTypeOrdering().

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

Parameters

pCellPopulation a pointer to the VertexBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 120 of file CellMutationStatesCountWriter.cpp.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::VisitAnyPopulation ( AbstractCellPopulation< SPACE_DIM, SPACE_DIM > * pCellPopulation )

A general method for writing to any population.

Parameters

pCellPopulation the population to write

Definition at line 74 of file CellMutationStatesCountWriter.cpp.

References PetscTools::AmMaster(), and AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetCellMutationStateCount().

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

void CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::WriteHeader ( AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > * pCellPopulation )

virtual

Overridden WriteHeader() method.

Write the header to file.

Parameters

pCellPopulation a pointer to the population to be written.