CellwiseData< DIM > Class Template Reference

#include <CellwiseData.hpp>

Collaboration diagram for CellwiseData< DIM >:

List of all members.

Public Member Functions

virtual ~CellwiseData ()

double GetValue (TissueCell *pCell, unsigned variableNumber=0)

void SetValue (double value, Node< DIM > *pNode, unsigned variableNumber=0)

void SetTissue (MeshBasedTissue< DIM > &rTissue)

MeshBasedTissue< DIM > & rGetTissue ()

void SetNumNodesAndVars (unsigned numNodes, unsigned numVars)

void SetConstantDataForTesting (std::vector< double > values)

bool IsSetUp ()

void ReallocateMemory ()

Static Public Member Functions

static CellwiseData * Instance ()

static void Destroy ()

Protected Member Functions

CellwiseData ()

Private Member Functions

template<class Archive>

void serialize (Archive &archive, const unsigned int version)

Private Attributes

MeshBasedTissue< DIM > * mpTissue

bool mAllocatedMemory

unsigned mNumberOfVariables

std::vector< double > mData

std::vector< double > mConstantDataForTesting

bool mUseConstantDataForTesting

Static Private Attributes

static CellwiseData * mpInstance = NULL

Friends

class TestCellwiseData

class boost::serialization::access

Detailed Description

template<unsigned DIM>
class CellwiseData< DIM >

A singleton object for storing data that certain cell cycle models need to know about, e.g. nutrient concentrations computed via some PDE for use in nutrient based cell cycle models.

Definition at line 44 of file CellwiseData.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>

CellwiseData< DIM >::CellwiseData ( ) [inline, protected]

Protected constuctor. Not to be called, use Instance() instead.

Definition at line 51 of file CellwiseData.cpp.

References CellwiseData< DIM >::mpInstance.

template<unsigned DIM>

CellwiseData< DIM >::~CellwiseData ( ) [inline, virtual]

Destructor.

Definition at line 63 of file CellwiseData.cpp.

Member Function Documentation

template<unsigned DIM>

template<class Archive>

void CellwiseData< DIM >::serialize	(	Archive &	archive,
		const unsigned int	version
	)			`[inline, private]`

Archive the member variables.

Parameters:

	archive
	version

Definition at line 80 of file CellwiseData.hpp.

References CellwiseData< DIM >::mAllocatedMemory, CellwiseData< DIM >::mConstantDataForTesting, CellwiseData< DIM >::mData, CellwiseData< DIM >::mNumberOfVariables, CellwiseData< DIM >::mpTissue, and CellwiseData< DIM >::mUseConstantDataForTesting.

template<unsigned DIM>

CellwiseData< DIM > * CellwiseData< DIM >::Instance ( ) [inline, static]

Get an instance of the object

Definition at line 40 of file CellwiseData.cpp.

References CellwiseData< DIM >::mpInstance.

Referenced by TissueSimulationArchiver< DIM, SIM >::Load(), and TissueSimulationArchiver< DIM, SIM >::Save().

template<unsigned DIM>

void CellwiseData< DIM >::Destroy ( ) [inline, static]

Destroy the current instance. Should be called at the end of a simulation.

Definition at line 69 of file CellwiseData.cpp.

References CellwiseData< DIM >::mpInstance.

template<unsigned DIM>

double CellwiseData< DIM >::GetValue	(	TissueCell *	pCell,
		unsigned	variableNumber = `0`
	)			`[inline]`

Get the value of CellwiseData for a given cell and variable number.

Parameters:

	pCell	pointer to a TissueCell
	variableNumber	the index of CellwiseData whose value is required (defaults to zero)

Returns:: the value of CellwiseData.

Definition at line 79 of file CellwiseData.cpp.

References CellwiseData< DIM >::IsSetUp(), CellwiseData< DIM >::mAllocatedMemory, CellwiseData< DIM >::mConstantDataForTesting, CellwiseData< DIM >::mData, CellwiseData< DIM >::mNumberOfVariables, CellwiseData< DIM >::mpTissue, and CellwiseData< DIM >::mUseConstantDataForTesting.

template<unsigned DIM>

void CellwiseData< DIM >::SetValue	(	double	value,
		Node< DIM > *	pNode,
		unsigned	variableNumber = `0`
	)			`[inline]`

Set the value for a given node and variable number.

Parameters:

	value	the value to set
	pNode	pointer to the Node
	variableNumber	the index of CellwiseData whose value is set (defaults to zero)

Definition at line 99 of file CellwiseData.cpp.

References Node< SPACE_DIM >::GetIndex(), CellwiseData< DIM >::IsSetUp(), CellwiseData< DIM >::mData, and CellwiseData< DIM >::mNumberOfVariables.

template<unsigned DIM>

void CellwiseData< DIM >::SetTissue ( MeshBasedTissue< DIM > & rTissue ) [inline]

Set the Tissue. Must be called before GetValue().

Parameters:

rTissue

reference to the Tissue

Definition at line 108 of file CellwiseData.cpp.

References CellwiseData< DIM >::mAllocatedMemory, and CellwiseData< DIM >::mpTissue.

template<unsigned DIM>

MeshBasedTissue< DIM > & CellwiseData< DIM >::rGetTissue ( ) [inline]

Returns:: reference to the Tissue.

Definition at line 119 of file CellwiseData.cpp.

References CellwiseData< DIM >::mpTissue.

template<unsigned DIM>

void CellwiseData< DIM >::SetNumNodesAndVars	(	unsigned	numNodes,
		unsigned	numVars
	)			`[inline]`

Set the number of variables to be stored per cell. The constructor assumes 1 variable so only really needs to be called if numVars > 1.

Parameters:

	numNodes	number of nodes in the tissue
	numVars	number of variables

Definition at line 126 of file CellwiseData.cpp.

References CellwiseData< DIM >::mAllocatedMemory, CellwiseData< DIM >::mData, CellwiseData< DIM >::mNumberOfVariables, and CellwiseData< DIM >::mpTissue.

template<unsigned DIM>

void CellwiseData< DIM >::SetConstantDataForTesting ( std::vector< double > values ) [inline]

Force the data to return given values for all cells (only for testing).

Parameters:

values

vector of CellwiseData values

Definition at line 164 of file CellwiseData.cpp.

References CellwiseData< DIM >::mConstantDataForTesting, and CellwiseData< DIM >::mUseConstantDataForTesting.

template<unsigned DIM>

bool CellwiseData< DIM >::IsSetUp ( ) [inline]

Is the instance in existence and fully set up

Definition at line 144 of file CellwiseData.cpp.

References CellwiseData< DIM >::mAllocatedMemory, CellwiseData< DIM >::mpInstance, and CellwiseData< DIM >::mpTissue.

Referenced by CellwiseData< DIM >::GetValue(), TissueSimulationArchiver< DIM, SIM >::Save(), and CellwiseData< DIM >::SetValue().

template<unsigned DIM>

void CellwiseData< DIM >::ReallocateMemory ( ) [inline]

Reallocate size of mData. Needed because of growth/death. Reallocates according to the number of nodes in the mesh in the Tissue member variable

Definition at line 150 of file CellwiseData.cpp.

References CellwiseData< DIM >::mAllocatedMemory, CellwiseData< DIM >::mData, CellwiseData< DIM >::mNumberOfVariables, and CellwiseData< DIM >::mpTissue.

Friends And Related Function Documentation

template<unsigned DIM>

friend class boost::serialization::access [friend]

Needed for serialization.

Definition at line 72 of file CellwiseData.hpp.

Member Data Documentation

template<unsigned DIM>

CellwiseData< DIM > * CellwiseData< DIM >::mpInstance = NULL [inline, static, private]

The single instance of the singleton object

Pointer to the single instance

Definition at line 51 of file CellwiseData.hpp.

Referenced by CellwiseData< DIM >::CellwiseData(), CellwiseData< DIM >::Destroy(), CellwiseData< DIM >::Instance(), and CellwiseData< DIM >::IsSetUp().

template<unsigned DIM>

MeshBasedTissue<DIM>* CellwiseData< DIM >::mpTissue [private]

A pointer to a Tissue so a cell's node can be found

Definition at line 54 of file CellwiseData.hpp.

Referenced by CellwiseData< DIM >::GetValue(), CellwiseData< DIM >::IsSetUp(), CellwiseData< DIM >::ReallocateMemory(), CellwiseData< DIM >::rGetTissue(), CellwiseData< DIM >::serialize(), CellwiseData< DIM >::SetNumNodesAndVars(), and CellwiseData< DIM >::SetTissue().

template<unsigned DIM>

bool CellwiseData< DIM >::mAllocatedMemory [private]

Allocated memory for mData object

Definition at line 57 of file CellwiseData.hpp.

Referenced by CellwiseData< DIM >::GetValue(), CellwiseData< DIM >::IsSetUp(), CellwiseData< DIM >::ReallocateMemory(), CellwiseData< DIM >::serialize(), CellwiseData< DIM >::SetNumNodesAndVars(), and CellwiseData< DIM >::SetTissue().

template<unsigned DIM>

unsigned CellwiseData< DIM >::mNumberOfVariables [private]

Number of variables per node to be stored

Definition at line 60 of file CellwiseData.hpp.

Referenced by CellwiseData< DIM >::GetValue(), CellwiseData< DIM >::ReallocateMemory(), CellwiseData< DIM >::serialize(), CellwiseData< DIM >::SetNumNodesAndVars(), and CellwiseData< DIM >::SetValue().

template<unsigned DIM>

std::vector<double> CellwiseData< DIM >::mData [private]

Store of the data

Definition at line 63 of file CellwiseData.hpp.

Referenced by CellwiseData< DIM >::GetValue(), CellwiseData< DIM >::ReallocateMemory(), CellwiseData< DIM >::serialize(), CellwiseData< DIM >::SetNumNodesAndVars(), and CellwiseData< DIM >::SetValue().

template<unsigned DIM>

std::vector<double> CellwiseData< DIM >::mConstantDataForTesting [private]

Helper member storing constant data. Used in tests.

Definition at line 66 of file CellwiseData.hpp.

Referenced by CellwiseData< DIM >::GetValue(), CellwiseData< DIM >::serialize(), and CellwiseData< DIM >::SetConstantDataForTesting().

template<unsigned DIM>

bool CellwiseData< DIM >::mUseConstantDataForTesting [private]

Helper member storing whether mConstantDataForTesting is used.

Definition at line 69 of file CellwiseData.hpp.

Referenced by CellwiseData< DIM >::GetValue(), CellwiseData< DIM >::serialize(), and CellwiseData< DIM >::SetConstantDataForTesting().

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

/tmp/release_1/cancer/src/tissue/CellwiseData.hpp
/tmp/release_1/cancer/src/tissue/CellwiseData.cpp


Public Member Functions
virtual	~CellwiseData ()
double	GetValue (TissueCell *pCell, unsigned variableNumber=0)
void	SetValue (double value, Node< DIM > *pNode, unsigned variableNumber=0)
void	SetTissue (MeshBasedTissue< DIM > &rTissue)
MeshBasedTissue< DIM > &	rGetTissue ()
void	SetNumNodesAndVars (unsigned numNodes, unsigned numVars)
void	SetConstantDataForTesting (std::vector< double > values)
bool	IsSetUp ()
void	ReallocateMemory ()
Static Public Member Functions
static CellwiseData *	Instance ()
static void	Destroy ()
Protected Member Functions
	CellwiseData ()
Private Member Functions
template<class Archive>
void	serialize (Archive &archive, const unsigned int version)
Private Attributes
MeshBasedTissue< DIM > *	mpTissue
bool	mAllocatedMemory
unsigned	mNumberOfVariables
std::vector< double >	mData
std::vector< double >	mConstantDataForTesting
bool	mUseConstantDataForTesting
Static Private Attributes
static CellwiseData *	mpInstance = NULL
Friends
class	TestCellwiseData
class	boost::serialization::access

CellwiseData< DIM > Class Template Reference

Public Member Functions

Static Public Member Functions

Protected Member Functions

Private Member Functions

Private Attributes

Static Private Attributes

Friends

Detailed Description

template<unsigned DIM> class CellwiseData< DIM >

Constructor & Destructor Documentation

Member Function Documentation

Friends And Related Function Documentation

Member Data Documentation

template<unsigned DIM>
class CellwiseData< DIM >