Maleckar2009OdeSystem Class Reference

#include <Maleckar2009OdeSystem.hpp>

Collaboration diagram for Maleckar2009OdeSystem:

Public Member Functions
	Maleckar2009OdeSystem (boost::shared_ptr< AbstractIvpOdeSolver > pSolver, boost::shared_ptr< AbstractStimulusFunction > pIntracellularStimulus)
	~Maleckar2009OdeSystem (void)
void	SetScaleFactorGks (double sfgks)
void	SetScaleFactorIto (double sfito)
void	SetScaleFactorGkr (double sfgkr)
void	SetScaleFactorGna (double sfgna)
void	SetScaleFactorAch (double sfach)
void	SetScaleFactorGNaK (double sfgnak)
void	SetScaleFactorGNaCa (double sfgnaca)
void	SetScaleFactorGCaL (double sfgcal)
void	SetScaleFactorGKur (double sfgkur)
void	SetScaleFactorGK1 (double sfgk1)
void	SetScaleFactorAZD (double sfazd)
double	GetIIonic ()
void	EvaluateYDerivatives (double var_environment__time, const std::vector< double > &rY, std::vector< double > &rDY)
Private Member Functions
void	VerifyStateVariables ()
template<class Archive >
void	serialize (Archive &archive, const unsigned int version)
Private Attributes
double	mScaleFactorGks
double	mScaleFactorIto
double	mScaleFactorGkr
double	mScaleFactorGna
double	mScaleFactorAch
double	mScaleFactorGNaK
double	mScaleFactorGNaCa
double	mScaleFactorGCaL
double	mScaleFactorGKur
double	mScaleFactorGK1
double	mScaleFactorAZD
Friends
class	boost::serialization::access

Detailed Description

This class implements the Maleckar 2009 atrial cell model The code has been translated by PyCml. Some scale factors have been manually added to be used to simulate the effect of some drug. By default, it behaves in a 'control' situation i.e., like the file downloaded from the CellML repository. State variables are initialised as to be at steady state for 1Hz.

Definition at line 31 of file Maleckar2009OdeSystem.hpp.

Constructor & Destructor Documentation

Maleckar2009OdeSystem::Maleckar2009OdeSystem	(	boost::shared_ptr< AbstractIvpOdeSolver >	pSolver,
		boost::shared_ptr< AbstractStimulusFunction >	pIntracellularStimulus
	)

Constructor

Parameters:

	pSolver	is a pointer to the ODE solver
	pIntracellularStimulus	is a pointer to the intracellular stimulus

Definition at line 19 of file Maleckar2009OdeSystem.cpp.

References AbstractCardiacCell::Init(), AbstractOdeSystem::mpSystemInfo, mScaleFactorAch, mScaleFactorAZD, mScaleFactorGCaL, mScaleFactorGK1, mScaleFactorGkr, mScaleFactorGks, mScaleFactorGKur, mScaleFactorGna, mScaleFactorGNaCa, mScaleFactorGNaK, and mScaleFactorIto.

Maleckar2009OdeSystem::~Maleckar2009OdeSystem ( void )

Destructor

Definition at line 41 of file Maleckar2009OdeSystem.cpp.

Member Function Documentation

void Maleckar2009OdeSystem::EvaluateYDerivatives	(	double	var_environment__time,
		const std::vector< double > &	rY,
		std::vector< double > &	rDY
	)			`[virtual]`

Fill in a vector representing the RHS of the TenTusscher2006 system of Odes at each time step, y' = [y1' ... yn']. Some ODE solver will call this function repeatedly to solve for y = [y1 ... yn].

Parameters:

	time	the current time, in milliseconds
	rY	current values of the state variables
	rDY	to be filled in with derivatives

Implements AbstractOdeSystem.

Definition at line 272 of file Maleckar2009OdeSystem.cpp.

References AbstractCardiacCell::GetStimulus(), mScaleFactorAch, mScaleFactorAZD, mScaleFactorGCaL, mScaleFactorGK1, mScaleFactorGkr, mScaleFactorGks, mScaleFactorGKur, mScaleFactorGna, mScaleFactorGNaCa, mScaleFactorGNaK, mScaleFactorIto, AbstractCardiacCell::mSetVoltageDerivativeToZero, and VerifyStateVariables().

double Maleckar2009OdeSystem::GetIIonic ( ) [virtual]

Returns the ionic current

Returns:: the total ionic current

Implements AbstractCardiacCell.

Definition at line 93 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorAch, mScaleFactorAZD, mScaleFactorGCaL, mScaleFactorGK1, mScaleFactorGkr, mScaleFactorGks, mScaleFactorGKur, mScaleFactorGna, mScaleFactorGNaCa, mScaleFactorGNaK, mScaleFactorIto, and AbstractOdeSystem::rGetStateVariables().

template<class Archive >

void Maleckar2009OdeSystem::serialize	(	Archive &	archive,
		const unsigned int	version
	)			`[inline, private]`

Archive the member variables.

Parameters:

	archive
	version

Reimplemented from AbstractCardiacCell.

Definition at line 77 of file Maleckar2009OdeSystem.hpp.

void Maleckar2009OdeSystem::SetScaleFactorAch ( double sfach )

Set the scale factor for Ach, acetilcholine concentration

Parameters:

sfach

Definition at line 61 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorAch.

void Maleckar2009OdeSystem::SetScaleFactorAZD ( double sfazd )

Set the scale factor for concentration of AZD compound (fom AstraZeneca)

Parameters:

sfazd

Definition at line 85 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorAZD.

void Maleckar2009OdeSystem::SetScaleFactorGCaL ( double sfgcal )

Set the scale factor for L-type current

Parameters:

sfgcal

Definition at line 73 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorGCaL.

void Maleckar2009OdeSystem::SetScaleFactorGK1 ( double sfgk1 )

Set the scale factor for the K1 current

Parameters:

sfgk1

Definition at line 81 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorGK1.

void Maleckar2009OdeSystem::SetScaleFactorGkr ( double sfgkr )

Set the scale factor for GKr

Parameters:

sfgkr

Definition at line 53 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorGkr.

Referenced by HeartConfigRelatedCellFactory< SPACE_DIM >::CreateCellWithIntracellularStimulus().

void Maleckar2009OdeSystem::SetScaleFactorGks ( double sfgks )

Set the scale factor for Gks

Parameters:

sfgks

Definition at line 45 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorGks.

Referenced by HeartConfigRelatedCellFactory< SPACE_DIM >::CreateCellWithIntracellularStimulus().

void Maleckar2009OdeSystem::SetScaleFactorGKur ( double sfgkur )

Set the scale factor for the Kur current

Parameters:

sfgkur

Definition at line 77 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorGKur.

void Maleckar2009OdeSystem::SetScaleFactorGna ( double sfgna )

Set the scale factor for GNa

Parameters:

sfgna

Definition at line 57 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorGna.

void Maleckar2009OdeSystem::SetScaleFactorGNaCa ( double sfgnaca )

Set the scale factor for Na/Ca exchanger

Parameters:

sfgnaca

Definition at line 69 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorGNaCa.

void Maleckar2009OdeSystem::SetScaleFactorGNaK ( double sfgnak )

Set the scale factor for Na/K exchanger

Parameters:

sfgnak

Definition at line 65 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorGNaK.

void Maleckar2009OdeSystem::SetScaleFactorIto ( double sfito )

Set the scale factor for Ito

Parameters:

sfito

Definition at line 49 of file Maleckar2009OdeSystem.cpp.

References mScaleFactorIto.

Referenced by HeartConfigRelatedCellFactory< SPACE_DIM >::CreateCellWithIntracellularStimulus().

void Maleckar2009OdeSystem::VerifyStateVariables ( ) [private, virtual]

Range-checking on the current values of the state variables. Make sure all gating variables have are within zero and one, and all concentrations are positive.

///\ TODO : implement this!

Reimplemented from AbstractCardiacCell.

Definition at line 90 of file Maleckar2009OdeSystem.cpp.

Referenced by EvaluateYDerivatives().