#include <Kerchoffs2003ContractionModel.hpp>

Inheritance diagram for Kerchoffs2003ContractionModel:

Collaboration diagram for Kerchoffs2003ContractionModel:

Public Member Functions
	Kerchoffs2003ContractionModel ()

void	EvaluateYDerivatives (double time, const std::vector< double > &rY, std::vector< double > &rDY)

void	SetInputParameters (ContractionModelInputParameters &rInputParameters)

void	SetStretchAndStretchRate (double stretch, double stretchRate)

double	GetActiveTension ()

bool	IsStretchDependent ()

bool	IsStretchRateDependent ()

double	GetNextActiveTension ()

Public Member Functions inherited from AbstractOdeBasedContractionModel
	AbstractOdeBasedContractionModel (unsigned numStateVariables)

virtual void	RunDoNotUpdate (double startTime, double endTime, double timeStep)

void	UpdateStateVariables ()

void	RunAndUpdate (double startTime, double endTime, double timeStep)

Public Member Functions inherited from AbstractOdeSystem
	AbstractOdeSystem (unsigned numberOfStateVariables)

virtual	~AbstractOdeSystem ()

virtual bool	CalculateStoppingEvent (double time, const std::vector< double > &rY)

virtual double	CalculateRootFunction (double time, const std::vector< double > &rY)

bool	GetUseAnalyticJacobian ()

const std::vector< double > &	rGetConstStateVariables () const

Public Member Functions inherited from AbstractParameterisedSystem< std::vector< double > >
	AbstractParameterisedSystem (unsigned numberOfStateVariables)

std::vector< double > &	rGetStateVariables ()

std::vector< double >	GetStateVariables ()

void	SetStateVariables (const std::vector< double > &rStateVariables)

double	GetStateVariable (unsigned index) const

double	GetStateVariable (const std::string &rName) const

void	SetStateVariable (unsigned index, double newValue)

void	SetStateVariable (const std::string &rName, double newValue)

virtual void	VerifyStateVariables ()

void	SetDefaultInitialConditions (const std::vector< double > &rInitialConditions)

void	SetDefaultInitialCondition (unsigned index, double initialCondition)

std::vector< double >	GetInitialConditions () const

void	ResetToInitialConditions ()

double	GetParameter (unsigned index) const

double	GetParameter (const std::string &rName) const

void	SetParameter (const std::string &rName, double value)

void	SetParameter (unsigned index, double value)

double	GetAnyVariable (unsigned index, double time=0.0, std::vector< double > *pDerivedQuantities=NULL)

double	GetAnyVariable (const std::string &rName, double time=0.0, std::vector< double > *pDerivedQuantities=NULL)

void	SetAnyVariable (unsigned index, double value)

void	SetAnyVariable (const std::string &rName, double value)

virtual std::vector< double >	ComputeDerivedQuantities (double time, const std::vector< double > &rState)

std::vector< double >	ComputeDerivedQuantitiesFromCurrentState (double time)

Public Member Functions inherited from AbstractUntemplatedParameterisedSystem
	AbstractUntemplatedParameterisedSystem (unsigned numberOfStateVariables)

virtual	~AbstractUntemplatedParameterisedSystem ()

boost::shared_ptr< const AbstractOdeSystemInformation >	GetSystemInformation () const

std::string	GetSystemName () const

unsigned	GetNumberOfAttributes () const

bool	HasAttribute (const std::string &rName) const

double	GetAttribute (const std::string &rName) const

unsigned	GetNumberOfStateVariables () const

const std::vector< std::string > &	rGetStateVariableNames () const

const std::vector< std::string > &	rGetStateVariableUnits () const

unsigned	GetStateVariableIndex (const std::string &rName) const

bool	HasStateVariable (const std::string &rName) const

std::string	GetStateVariableUnits (unsigned index) const

unsigned	GetNumberOfParameters () const

const std::vector< std::string > &	rGetParameterNames () const

const std::vector< std::string > &	rGetParameterUnits () const

unsigned	GetParameterIndex (const std::string &rName) const

bool	HasParameter (const std::string &rName) const

std::string	GetParameterUnits (unsigned index) const

unsigned	GetNumberOfDerivedQuantities () const

const std::vector< std::string > &	rGetDerivedQuantityNames () const

const std::vector< std::string > &	rGetDerivedQuantityUnits () const

unsigned	GetDerivedQuantityIndex (const std::string &rName) const

bool	HasDerivedQuantity (const std::string &rName) const

std::string	GetDerivedQuantityUnits (unsigned index) const

unsigned	GetAnyVariableIndex (const std::string &rName) const

bool	HasAnyVariable (const std::string &rName) const

std::string	GetAnyVariableUnits (unsigned index) const

std::string	GetAnyVariableUnits (const std::string &rName) const

Public Member Functions inherited from AbstractContractionModel
	AbstractContractionModel ()

virtual	~AbstractContractionModel ()

void	SetStretch (double stretch)

Private Member Functions
double	GetActiveTension (double lengthOfContractileElement)

Private Attributes
double	mSarcomereLength

double	mActivationTime

bool	mIsActivated

bool	mElectricallyUnactivated

Static Private Attributes
static const double	a6 = 2.0

static const double	a7 = 1.5

static const double	T0 = 180

static const double	Ea = 20

static const double	v0 = 0.0075

static const double	ls0 = 1.9

static const double	ld = -0.4

static const double	mActivationVoltage = 0.0

static const double	mDeactivationVoltage = -70.0

Friends
class	TestContractionModels

Additional Inherited Members
Protected Member Functions inherited from AbstractParameterisedSystem< std::vector< double > >
std::string	DumpState (const std::string &rMessage)

std::string	DumpState (const std::string &rMessage, std::vector< double >Y)

std::string	DumpState (const std::string &rMessage, std::vector< double >Y, double time)

void	CheckParametersOnLoad (const std::vector< double > &rParameters, const std::vector< std::string > &rParameterNames)

Protected Attributes inherited from AbstractOdeBasedContractionModel
std::vector< double >	mTemporaryStateVariables

double	mTime

Protected Attributes inherited from AbstractOdeSystem
bool	mUseAnalyticJacobian

Protected Attributes inherited from AbstractParameterisedSystem< std::vector< double > >
std::vector< double >	mStateVariables

std::vector< double >	mParameters

Protected Attributes inherited from AbstractUntemplatedParameterisedSystem
unsigned	mNumberOfStateVariables

boost::shared_ptr < AbstractOdeSystemInformation >	mpSystemInfo

Detailed Description

Implementation of the ODE-based, stretch-dependent, stretch-rate-INdependent, contraction model detailed in the appendix of Kerchoffs 2003 "Intra- and interventricular asynchrony of electromechanics in the ventricularly paced heart".

Definition at line 48 of file Kerchoffs2003ContractionModel.hpp.

Constructor & Destructor Documentation

Kerchoffs2003ContractionModel::Kerchoffs2003ContractionModel ( )

Constructor

Definition at line 52 of file Kerchoffs2003ContractionModel.cpp.

References Ea, OdeSystemInformation< ODE_SYSTEM >::Instance(), ls0, mActivationTime, mElectricallyUnactivated, mIsActivated, AbstractParameterisedSystem< std::vector< double > >::mParameters, AbstractUntemplatedParameterisedSystem::mpSystemInfo, mSarcomereLength, AbstractParameterisedSystem< std::vector< double > >::mStateVariables, AbstractOdeBasedContractionModel::mTime, and AbstractParameterisedSystem< std::vector< double > >::SetParameter().

Member Function Documentation

void Kerchoffs2003ContractionModel::EvaluateYDerivatives	(	double	time,
		const std::vector< double > &	rY,
		std::vector< double > &	rDY
	)

virtual

The derivative function of the one state variable: "lc" in reference, the length of the contractile element

Parameters

time	time
rY	1D vector containing lc
rDY	1D vector in which dlc/dt is set

Implements AbstractOdeSystem.

Definition at line 73 of file Kerchoffs2003ContractionModel.cpp.

References Ea, mSarcomereLength, and v0.

double Kerchoffs2003ContractionModel::GetActiveTension ( double lengthOfContractileElement )

private

Returns: the active tension as a function of length of contractile element. This is private. The public GetActiveTension() calls this using the value of lc in the state variable

Parameters

lengthOfContractileElement length of contractile element (the state variable in this model).

Definition at line 109 of file Kerchoffs2003ContractionModel.cpp.

References a6, a7, Ea, AbstractParameterisedSystem< std::vector< double > >::GetParameter(), ld, ls0, mActivationTime, mElectricallyUnactivated, mIsActivated, mSarcomereLength, AbstractOdeBasedContractionModel::mTime, and T0.

double Kerchoffs2003ContractionModel::GetActiveTension ( )

virtual

Returns: the active tension (note: actually a stress), ie kPa

Implements AbstractContractionModel.

Definition at line 144 of file Kerchoffs2003ContractionModel.cpp.

References AbstractParameterisedSystem< std::vector< double > >::mStateVariables.

Referenced by GetNextActiveTension().

double Kerchoffs2003ContractionModel::GetNextActiveTension ( )

virtual

Returns: the active tension corresponding to the temporary stored state variables produced by calling RunDoNotUpdate (and before calling UpdateStateVariables())

Implements AbstractContractionModel.

Definition at line 149 of file Kerchoffs2003ContractionModel.cpp.

References GetActiveTension(), and AbstractOdeBasedContractionModel::mTemporaryStateVariables.

bool Kerchoffs2003ContractionModel::IsStretchDependent ( )

inlinevirtual

Returns: whether model is stretch-dependent

Implements AbstractContractionModel.

Definition at line 124 of file Kerchoffs2003ContractionModel.hpp.

bool Kerchoffs2003ContractionModel::IsStretchRateDependent ( )

inlinevirtual

Returns: whether model is stretch-rate-independent

Implements AbstractContractionModel.

Definition at line 132 of file Kerchoffs2003ContractionModel.hpp.

void Kerchoffs2003ContractionModel::SetInputParameters ( ContractionModelInputParameters & rInputParameters )

virtual

Set the input parameters. The calcium concentration is not used. If the voltage is such that activation has occured (gone above mActivationVoltage), the state is set to active and the time saved as the activation time.

Parameters

rInputParameters reference to the input parameters

Implements AbstractContractionModel.

Definition at line 82 of file Kerchoffs2003ContractionModel.cpp.

References DOUBLE_UNSET, mActivationTime, mActivationVoltage, mDeactivationVoltage, mElectricallyUnactivated, mIsActivated, AbstractOdeBasedContractionModel::mTime, and ContractionModelInputParameters_::voltage.

void Kerchoffs2003ContractionModel::SetStretchAndStretchRate	(	double	stretch,
		double	stretchRate
	)

virtual

Take the stretch and compute the sarcomere length (stretch rate is not used).

Parameters

stretch	stretch
stretchRate	stretch rate

Implements AbstractContractionModel.

Definition at line 103 of file Kerchoffs2003ContractionModel.cpp.

References ls0, and mSarcomereLength.

Member Data Documentation

const double Kerchoffs2003ContractionModel::a6 = 2.0

staticprivate

See reference. 2.0 um^{-1}

Definition at line 53 of file Kerchoffs2003ContractionModel.hpp.

Referenced by GetActiveTension().

const double Kerchoffs2003ContractionModel::a7 = 1.5

staticprivate

See reference. 1.5 um

Definition at line 54 of file Kerchoffs2003ContractionModel.hpp.

Referenced by GetActiveTension().

const double Kerchoffs2003ContractionModel::Ea = 20

staticprivate

See reference. 20 um^{-1}

Definition at line 56 of file Kerchoffs2003ContractionModel.hpp.

Referenced by EvaluateYDerivatives(), GetActiveTension(), and Kerchoffs2003ContractionModel().

const double Kerchoffs2003ContractionModel::ld = -0.4

staticprivate

See reference. -0.4 um

Definition at line 62 of file Kerchoffs2003ContractionModel.hpp.

Referenced by GetActiveTension().

const double Kerchoffs2003ContractionModel::ls0 = 1.9

staticprivate

See reference. 1.9 um

Definition at line 58 of file Kerchoffs2003ContractionModel.hpp.

Referenced by GetActiveTension(), Kerchoffs2003ContractionModel(), and SetStretchAndStretchRate().

double Kerchoffs2003ContractionModel::mActivationTime

private

Time (ms) of electrical activation (= time the voltage at this cell reached mActivationVoltage)

Definition at line 72 of file Kerchoffs2003ContractionModel.hpp.

Referenced by GetActiveTension(), Kerchoffs2003ContractionModel(), and SetInputParameters().

const double Kerchoffs2003ContractionModel::mActivationVoltage = 0.0

staticprivate

Voltage threshold above which the cell is activated (mV) - note hysteresis

Definition at line 65 of file Kerchoffs2003ContractionModel.hpp.

Referenced by SetInputParameters().

const double Kerchoffs2003ContractionModel::mDeactivationVoltage = -70.0

staticprivate

Voltage threshold below which the cell is deactivated (mV)

Definition at line 67 of file Kerchoffs2003ContractionModel.hpp.

Referenced by SetInputParameters().

bool Kerchoffs2003ContractionModel::mElectricallyUnactivated

private

Whether the cell is electrically unactivated yet (whether the voltage has gone below mDeactivationVoltage

Definition at line 79 of file Kerchoffs2003ContractionModel.hpp.

Referenced by GetActiveTension(), Kerchoffs2003ContractionModel(), and SetInputParameters().

bool Kerchoffs2003ContractionModel::mIsActivated

private

Whether the cell is activated - whether the voltage has gone above mActivationTime and not gone below without going below mDeactivationVoltage, and that the cell has stopped producing force.

Definition at line 76 of file Kerchoffs2003ContractionModel.hpp.

Referenced by GetActiveTension(), Kerchoffs2003ContractionModel(), and SetInputParameters().

double Kerchoffs2003ContractionModel::mSarcomereLength

private

Length of the sarcomere in um. Variable "ls" in reference. Fibre-stretch is ls/ls0.

Definition at line 70 of file Kerchoffs2003ContractionModel.hpp.

Referenced by EvaluateYDerivatives(), GetActiveTension(), Kerchoffs2003ContractionModel(), and SetStretchAndStretchRate().