Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM > Class Template Reference

#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)
 
virtual void Visit (ImmersedBoundaryCellPopulation< 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

◆ CellMutationStatesCountWriter()

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::CellMutationStatesCountWriter ( )

Default constructor.

Definition at line 47 of file CellMutationStatesCountWriter.cpp.

Member Function Documentation

◆ serialize()

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
archivethe archive
versionthe current version of this class

Definition at line 61 of file CellMutationStatesCountWriter.hpp.

◆ Visit() [1/6]

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
pCellPopulationa pointer to the CaBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 104 of file CellMutationStatesCountWriter.cpp.

◆ Visit() [2/6]

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit ( ImmersedBoundaryCellPopulation< SPACE_DIM > *  pCellPopulation)
virtual

Visit the population and write the data.

Just passes through to VisitAnyPopulation

Parameters
pCellPopulationa pointer to the ImmersedBoundaryBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 128 of file CellMutationStatesCountWriter.cpp.

◆ Visit() [3/6]

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
pCellPopulationa pointer to the MeshBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 90 of file CellMutationStatesCountWriter.cpp.

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

◆ Visit() [4/6]

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
pCellPopulationa pointer to the NodeBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 110 of file CellMutationStatesCountWriter.cpp.

◆ Visit() [5/6]

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
pCellPopulationa pointer to the PottsBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 116 of file CellMutationStatesCountWriter.cpp.

◆ Visit() [6/6]

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
pCellPopulationa pointer to the VertexBasedCellPopulation to visit.

Implements AbstractCellPopulationCountWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 122 of file CellMutationStatesCountWriter.cpp.

◆ VisitAnyPopulation()

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
pCellPopulationthe population to write

Definition at line 76 of file CellMutationStatesCountWriter.cpp.

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

◆ WriteHeader()

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

Friends And Related Symbol Documentation

◆ boost::serialization::access

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
friend class boost::serialization::access
friend

Needed for serialization.

Definition at line 53 of file CellMutationStatesCountWriter.hpp.


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