Chaste  Release::2017.1
Public Member Functions | Private Member Functions | Friends | List of all members
CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM > Class Template Reference

#include <CellBetaCateninWriter.hpp>

+ Inheritance diagram for CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >:
+ Collaboration diagram for CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >:

Public Member Functions

 CellBetaCateninWriter ()
 
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 CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >

A class written using the visitor pattern for writing cell beta catenin levels to file.

Definition at line 46 of file CellBetaCateninWriter.hpp.

Constructor & Destructor Documentation

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

Default constructor.

Definition at line 40 of file CellBetaCateninWriter.cpp.

References AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >::mVtkCellDataName.

Referenced by CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >::serialize().

Member Function Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
double CellBetaCateninWriter< 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().

In this overridden method, since we are only able to output one double for each cell, we choose to output the cytoplasmic beta catenin concentration. Thus, at present, the membrane-bound and nuclear beta catenin concentrations cannot be visualized as VTK output. If this were required, it would be straightforward to implement within the current framework, for example by defined two new writer classes.

Parameters
pCella cell
pCellPopulationa pointer to the cell population owning the cell
Returns
data associated with the cell

Reimplemented from AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 47 of file CellBetaCateninWriter.cpp.

References AbstractVanLeeuwen2009WntSwatCellCycleModel::GetCytoplasmicBetaCateninLevel().

Referenced by CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >::serialize().

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
template<class Archive >
void CellBetaCateninWriter< 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 58 of file CellBetaCateninWriter.hpp.

References CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >::CellBetaCateninWriter(), EXPORT_TEMPLATE_CLASS_ALL_DIMS, CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >::GetCellDataForVtkOutput(), and CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >::VisitCell().

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
void CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >::VisitCell ( CellPtr  pCell,
AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *  pCellPopulation 
)
virtual

Overridden VisitCell() method. Visit a cell and write its data.

Parameters
pCellthe cell to write
pCellPopulationa pointer to the cell population owning the cell.

Implements AbstractCellWriter< ELEMENT_DIM, SPACE_DIM >.

Definition at line 56 of file CellBetaCateninWriter.cpp.

References EXPORT_TEMPLATE_CLASS_ALL_DIMS, AbstractVanLeeuwen2009WntSwatCellCycleModel::GetCytoplasmicBetaCateninLevel(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationIndexUsingCell(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetLocationOfCellCentre(), AbstractVanLeeuwen2009WntSwatCellCycleModel::GetMembraneBoundBetaCateninLevel(), AbstractVanLeeuwen2009WntSwatCellCycleModel::GetNuclearBetaCateninLevel(), and AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >::mpOutStream.

Referenced by CellBetaCateninWriter< ELEMENT_DIM, SPACE_DIM >::serialize().

Friends And Related Function Documentation

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

Needed for serialization.

Definition at line 50 of file CellBetaCateninWriter.hpp.

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