#include <SECompartmentManager.h>

Inheritance diagram for biogears::SECompartmentManager:

Public Member Functions
	SECompartmentManager (SESubstanceManager &subMgr)

virtual	~SECompartmentManager ()

virtual void	Clear ()

virtual bool	Load (const CDM::CompartmentManagerData &in, SECircuitManager *circuits=nullptr)

virtual CDM::CompartmentManagerData *	Unload () const

virtual void	StateChange ()

virtual void	UpdateLinks ()

virtual void	UpdateLinks (SEGasCompartmentGraph &graph)

virtual void	UpdateLinks (SELiquidCompartmentGraph &graph)

virtual bool	HasCompartment (CDM::enumCompartmentType::value type, const char *name) const

virtual bool	HasCompartment (CDM::enumCompartmentType::value type, const std::string &name) const

virtual SECompartment *	GetCompartment (CDM::enumCompartmentType::value type, const char *name)

virtual SECompartment *	GetCompartment (CDM::enumCompartmentType::value type, const std::string &name)

virtual const SECompartment *	GetCompartment (CDM::enumCompartmentType::value type, const char *name) const

virtual const SECompartment *	GetCompartment (CDM::enumCompartmentType::value type, const std::string &name) const

virtual SEGasCompartment &	CreateGasCompartment (const char *name)

virtual SEGasCompartment &	CreateGasCompartment (const std::string &name)

virtual void	DeleteGasCompartment (const char *name)

virtual void	DeleteGasCompartment (const std::string &name)

virtual bool	HasGasCompartment (const char *name) const

virtual bool	HasGasCompartment (const std::string &name) const

virtual SEGasCompartment *	GetGasCompartment (const char *name)

virtual SEGasCompartment *	GetGasCompartment (const std::string &name)

virtual const SEGasCompartment *	GetGasCompartment (const char *name) const

virtual const SEGasCompartment *	GetGasCompartment (const std::string &name) const

virtual const std::vector< SEGasCompartment * > &	GetGasCompartments ()

virtual const std::vector< SEGasCompartment * > &	GetGasLeafCompartments ()

virtual SEGasCompartmentLink &	CreateGasLink (SEGasCompartment &src, SEGasCompartment &tgt, const char *name)

virtual SEGasCompartmentLink &	CreateGasLink (SEGasCompartment &src, SEGasCompartment &tgt, const std::string &name)

virtual void	DeleteGasLink (const char *name)

virtual void	DeleteGasLink (const std::string &name)

virtual bool	HasGasLink (const char *name) const

virtual bool	HasGasLink (const std::string &name) const

virtual SEGasCompartmentLink *	GetGasLink (const char *name)

virtual SEGasCompartmentLink *	GetGasLink (const std::string &name)

virtual const SEGasCompartmentLink *	GetGasLink (const char *name) const

virtual const SEGasCompartmentLink *	GetGasLink (const std::string &name) const

virtual const std::vector< SEGasCompartmentLink * > &	GetGasLinks ()

virtual SEGasCompartmentGraph &	CreateGasGraph (const char *name)

virtual SEGasCompartmentGraph &	CreateGasGraph (const std::string &name)

virtual void	DeleteGasGraph (const char *name)

virtual void	DeleteGasGraph (const std::string &name)

virtual bool	HasGasGraph (const char *name) const

virtual bool	HasGasGraph (const std::string &name) const

virtual SEGasCompartmentGraph *	GetGasGraph (const char *name)

virtual SEGasCompartmentGraph *	GetGasGraph (const std::string &name)

virtual const SEGasCompartmentGraph *	GetGasGraph (const char *name) const

virtual const SEGasCompartmentGraph *	GetGasGraph (const std::string &name) const

virtual const std::vector< SEGasCompartmentGraph * > &	GetGasGraphs ()

virtual void	AddGasCompartmentSubstance (SESubstance &sub)

virtual const std::vector< SESubstance * > &	GetGasCompartmentSubstances () const

virtual SELiquidCompartment &	CreateLiquidCompartment (const char *name)

virtual SELiquidCompartment &	CreateLiquidCompartment (const std::string &name)

virtual void	DeleteLiquidCompartment (const char *name)

virtual void	DeleteLiquidCompartment (const std::string &name)

virtual bool	HasLiquidCompartment (const char *name) const

virtual bool	HasLiquidCompartment (const std::string &name) const

virtual SELiquidCompartment *	GetLiquidCompartment (const char *name)

virtual SELiquidCompartment *	GetLiquidCompartment (const std::string &name)

virtual const SELiquidCompartment *	GetLiquidCompartment (const char *name) const

virtual const SELiquidCompartment *	GetLiquidCompartment (const std::string &name) const

virtual const std::vector< SELiquidCompartment * > &	GetLiquidCompartments ()

virtual const std::vector< SELiquidCompartment * > &	GetLiquidLeafCompartments ()

virtual SELiquidCompartmentLink &	CreateLiquidLink (SELiquidCompartment &src, SELiquidCompartment &tgt, const char *name)

virtual SELiquidCompartmentLink &	CreateLiquidLink (SELiquidCompartment &src, SELiquidCompartment &tgt, const std::string &name)

virtual void	DeleteLiquidLink (const char *name)

virtual void	DeleteLiquidLink (const std::string &name)

virtual bool	HasLiquidLink (const char *name) const

virtual bool	HasLiquidLink (const std::string &name) const

virtual SELiquidCompartmentLink *	GetLiquidLink (const char *name)

virtual SELiquidCompartmentLink *	GetLiquidLink (const std::string &name)

virtual const SELiquidCompartmentLink *	GetLiquidLink (const char *name) const

virtual const SELiquidCompartmentLink *	GetLiquidLink (const std::string &name) const

virtual const std::vector< SELiquidCompartmentLink * > &	GetLiquidLinks ()

virtual SELiquidCompartmentGraph &	CreateLiquidGraph (const char *name)

virtual SELiquidCompartmentGraph &	CreateLiquidGraph (const std::string &name)

virtual void	DeleteLiquidGraph (const char *name)

virtual void	DeleteLiquidGraph (const std::string &name)

virtual bool	HasLiquidGraph (const char *name) const

virtual bool	HasLiquidGraph (const std::string &name) const

virtual SELiquidCompartmentGraph *	GetLiquidGraph (const char *name)

virtual SELiquidCompartmentGraph *	GetLiquidGraph (const std::string &name)

virtual const SELiquidCompartmentGraph *	GetLiquidGraph (const char *name) const

virtual const SELiquidCompartmentGraph *	GetLiquidGraph (const std::string &name) const

virtual const std::vector< SELiquidCompartmentGraph * > &	GetLiquidGraphs ()

virtual void	AddLiquidCompartmentSubstance (SESubstance &sub)

virtual const std::vector< SESubstance * > &	GetLiquidCompartmentSubstances () const

virtual SEThermalCompartment &	CreateThermalCompartment (const char *name)

virtual SEThermalCompartment &	CreateThermalCompartment (const std::string &name)

virtual void	DeleteThermalCompartment (const char *name)

virtual void	DeleteThermalCompartment (const std::string &name)

virtual bool	HasThermalCompartment (const char *name) const

virtual bool	HasThermalCompartment (const std::string &name) const

virtual SEThermalCompartment *	GetThermalCompartment (const char *name)

virtual SEThermalCompartment *	GetThermalCompartment (const std::string &name)

virtual const SEThermalCompartment *	GetThermalCompartment (const char *name) const

virtual const SEThermalCompartment *	GetThermalCompartment (const std::string &name) const

virtual const std::vector< SEThermalCompartment * > &	GetThermalCompartments ()

virtual const std::vector< SEThermalCompartment * > &	GetThermalLeafCompartments ()

virtual SEThermalCompartmentLink &	CreateThermalLink (SEThermalCompartment &src, SEThermalCompartment &tgt, const char *name)

virtual SEThermalCompartmentLink &	CreateThermalLink (SEThermalCompartment &src, SEThermalCompartment &tgt, const std::string &name)

virtual void	DeleteThermalLink (const char *name)

virtual void	DeleteThermalLink (const std::string &name)

virtual bool	HasThermalLink (const char *name) const

virtual bool	HasThermalLink (const std::string &name) const

virtual SEThermalCompartmentLink *	GetThermalLink (const char *name)

virtual SEThermalCompartmentLink *	GetThermalLink (const std::string &name)

virtual const SEThermalCompartmentLink *	GetThermalLink (const char *name) const

virtual const SEThermalCompartmentLink *	GetThermalLink (const std::string &name) const

virtual const std::vector< SEThermalCompartmentLink * > &	GetThermalLinks ()

virtual bool	HasTissueCompartment (const char *name) const

virtual bool	HasTissueCompartment (const std::string &name) const

virtual void	DeleteTissueCompartment (const char *name)

virtual void	DeleteTissueCompartment (const std::string &name)

virtual SETissueCompartment &	CreateTissueCompartment (const char *name)

virtual SETissueCompartment &	CreateTissueCompartment (const std::string &name)

virtual SETissueCompartment *	GetTissueCompartment (const char *name)

virtual SETissueCompartment *	GetTissueCompartment (const std::string &name)

virtual const SETissueCompartment *	GetTissueCompartment (const char *name) const

virtual const SETissueCompartment *	GetTissueCompartment (const std::string &name) const

virtual const std::vector< SETissueCompartment * > &	GetTissueCompartments ()

virtual const std::vector< SETissueCompartment * > &	GetTissueLeafCompartments ()

Public Member Functions inherited from biogears::Loggable
	Loggable ()

	Loggable (Logger *log)

virtual	~Loggable ()

virtual Logger *	GetLogger () const

Protected Member Functions
void	Unload (CDM::CompartmentManagerData &data) const

template<typename CompartmentType , typename LinkType >
void	UpdateLinks (const std::vector< CompartmentType * > &compartments, const std::vector< LinkType * > &links) const

template<typename CompartmentType , typename LinkType >
void	GetChildLinks (CompartmentType pnt, CompartmentType child) const

template<typename CompartmentType >
void	FindLeaves (CompartmentType cmpt, std::vector< CompartmentType > &leaves) const

template<typename CompartmentType >
CompartmentType &	CreateCompartment (const std::string &name, std::map< std::string, CompartmentType * > &name2cmpt, std::vector< SESubstance * > *substances)

template<typename CompartmentType >
bool	HasCompartment (const std::string &name, const std::map< std::string, CompartmentType * > &name2cmpt) const

template<typename CompartmentType >
CompartmentType *	GetCompartment (const std::string &name, std::map< std::string, CompartmentType * > &name2cmpt) const

template<typename CompartmentType >
const CompartmentType *	GetCompartment (const std::string &name, const std::map< std::string, CompartmentType * > &name2cmpt) const

template<typename LinkType , typename CompartmentType >
LinkType &	CreateLink (CompartmentType &src, CompartmentType &tgt, const std::string &name, std::map< std::string, LinkType * > &name2link) const

template<typename LinkType >
bool	HasLink (const std::string &name, const std::map< std::string, LinkType * > &name2link) const

template<typename LinkType >
LinkType *	GetLink (const std::string &name, std::map< std::string, LinkType * > &name2link) const

template<typename LinkType >
const LinkType *	GetLink (const std::string &name, const std::map< std::string, LinkType * > &name2link) const

template<typename CompartmentType >
void	SetSubstances (CompartmentType &cmpt, std::vector< SESubstance * > &substances) const

template<typename CompartmentType >
void	AddSubstance (SESubstance &s, CompartmentType &cmpt) const

virtual bool	AllowGasSubstance (SESubstance &s, SEGasCompartment &cmpt) const

virtual bool	AllowLiquidSubstance (SESubstance &s, SELiquidCompartment &cmpt) const

Protected Member Functions inherited from biogears::Loggable
virtual void	Debug (const char msg, const char origin="") const

virtual void	Debug (const std::string &msg, const std::string &origin=empty) const

virtual void	Debug (std::ostream &msg, const std::string &origin=empty) const

virtual void	Info (const char msg, const char origin="") const

virtual void	Info (const std::string &msg, const std::string &origin=empty) const

virtual void	Info (std::ostream &msg, const std::string &origin=empty) const

virtual void	Warning (const char msg, const char origin="") const

virtual void	Warning (const std::string &msg, const std::string &origin=empty) const

virtual void	Warning (std::ostream &msg, const std::string &origin=empty) const

virtual void	Error (const char msg, const char origin="") const

virtual void	Error (const std::string msg, const std::string origin=empty) const

virtual void	Error (std::ostream &msg, const std::string &origin=empty) const

virtual void	Fatal (const char msg, const char origin="") const

virtual void	Fatal (const std::string &msg, const std::string &origin=empty) const

virtual void	Fatal (std::ostream &msg, const std::string &origin=empty) const

Protected Attributes
std::vector< SEGasCompartment * >	m_GasCompartments

std::vector< SEGasCompartment * >	m_GasLeafCompartments

std::map< std::string, SEGasCompartment * >	m_GasName2Compartments

std::vector< SEGasCompartmentLink * >	m_GasLinks

std::map< std::string, SEGasCompartmentLink * >	m_GasName2Links

std::vector< SEGasCompartmentGraph * >	m_GasGraphs

std::map< std::string, SEGasCompartmentGraph * >	m_GasName2Graphs

std::vector< SESubstance * >	m_GasSubstances

std::vector< SELiquidCompartment * >	m_LiquidCompartments

std::vector< SELiquidCompartment * >	m_LiquidLeafCompartments

std::map< std::string, SELiquidCompartment * >	m_LiquidName2Compartments

std::vector< SELiquidCompartmentLink * >	m_LiquidLinks

std::map< std::string, SELiquidCompartmentLink * >	m_LiquidName2Links

std::vector< SELiquidCompartmentGraph * >	m_LiquidGraphs

std::map< std::string, SELiquidCompartmentGraph * >	m_LiquidName2Graphs

std::vector< SESubstance * >	m_LiquidSubstances

std::vector< SEThermalCompartment * >	m_ThermalCompartments

std::vector< SEThermalCompartment * >	m_ThermalLeafCompartments

std::map< std::string, SEThermalCompartment * >	m_ThermalName2Compartments

std::vector< SEThermalCompartmentLink * >	m_ThermalLinks

std::map< std::string, SEThermalCompartmentLink * >	m_ThermalName2Links

std::vector< SETissueCompartment * >	m_TissueCompartments

std::vector< SETissueCompartment * >	m_TissueLeafCompartments

std::map< std::string, SETissueCompartment * >	m_TissueName2Compartments

SESubstance *	m_O2

SESubstance *	m_CO2

SESubstance *	m_CO

SESubstance *	m_Hb

SESubstance *	m_HbO2

SESubstance *	m_HbCO2

SESubstance *	m_HbO2CO2

SESubstance *	m_HbCO

SESubstanceManager &	m_subMgr

Protected Attributes inherited from biogears::Loggable
Logger *	m_Logger

Additional Inherited Members
Static Public Attributes inherited from biogears::Loggable
static const std::string	empty

static const char *	empty_cStr

Constructor & Destructor Documentation

biogears::SECompartmentManager::SECompartmentManager ( SESubstanceManager & subMgr )

biogears::SECompartmentManager::~SECompartmentManager ( )

virtual

Member Function Documentation

void biogears::SECompartmentManager::AddGasCompartmentSubstance ( SESubstance & sub )

virtual

Reimplemented in biogears::BioGearsCompartments.

void biogears::SECompartmentManager::AddLiquidCompartmentSubstance ( SESubstance & sub )

virtual

Reimplemented in biogears::BioGearsCompartments.

template<typename CompartmentType >

void biogears::SECompartmentManager::AddSubstance	(	SESubstance &	s,
		CompartmentType &	cmpt
	)		const

protected

virtual bool biogears::SECompartmentManager::AllowGasSubstance	(	SESubstance &	s,
		SEGasCompartment &	cmpt
	)		const

inlineprotectedvirtual

Reimplemented in biogears::BioGearsCompartments.

virtual bool biogears::SECompartmentManager::AllowLiquidSubstance	(	SESubstance &	s,
		SELiquidCompartment &	cmpt
	)		const

inlineprotectedvirtual

Reimplemented in biogears::BioGearsCompartments.

void biogears::SECompartmentManager::Clear ( )

virtual

Reimplemented in biogears::BioGearsCompartments.

template<typename CompartmentType >

CompartmentType & biogears::SECompartmentManager::CreateCompartment	(	const std::string &	name,
		std::map< std::string, CompartmentType * > &	name2cmpt,
		std::vector< SESubstance * > *	substances
	)

protected

SEGasCompartment & biogears::SECompartmentManager::CreateGasCompartment ( const char * name )

virtual

SEGasCompartment & biogears::SECompartmentManager::CreateGasCompartment ( const std::string & name )

virtual

SEGasCompartmentGraph & biogears::SECompartmentManager::CreateGasGraph ( const char * name )

virtual

SEGasCompartmentGraph & biogears::SECompartmentManager::CreateGasGraph ( const std::string & name )

virtual

SEGasCompartmentLink & biogears::SECompartmentManager::CreateGasLink	(	SEGasCompartment &	src,
		SEGasCompartment &	tgt,
		const char *	name
	)

virtual

SEGasCompartmentLink & biogears::SECompartmentManager::CreateGasLink	(	SEGasCompartment &	src,
		SEGasCompartment &	tgt,
		const std::string &	name
	)

virtual

template<typename LinkType , typename CompartmentType >

LinkType & biogears::SECompartmentManager::CreateLink	(	CompartmentType &	src,
		CompartmentType &	tgt,
		const std::string &	name,
		std::map< std::string, LinkType * > &	name2link
	)		const

protected

SELiquidCompartment & biogears::SECompartmentManager::CreateLiquidCompartment ( const char * name )

virtual

SELiquidCompartment & biogears::SECompartmentManager::CreateLiquidCompartment ( const std::string & name )

virtual

SELiquidCompartmentGraph & biogears::SECompartmentManager::CreateLiquidGraph ( const char * name )

virtual

SELiquidCompartmentGraph & biogears::SECompartmentManager::CreateLiquidGraph ( const std::string & name )

virtual

SELiquidCompartmentLink & biogears::SECompartmentManager::CreateLiquidLink	(	SELiquidCompartment &	src,
		SELiquidCompartment &	tgt,
		const char *	name
	)

virtual

SELiquidCompartmentLink & biogears::SECompartmentManager::CreateLiquidLink	(	SELiquidCompartment &	src,
		SELiquidCompartment &	tgt,
		const std::string &	name
	)

virtual

SEThermalCompartment & biogears::SECompartmentManager::CreateThermalCompartment ( const char * name )

virtual

SEThermalCompartment & biogears::SECompartmentManager::CreateThermalCompartment ( const std::string & name )

virtual

SEThermalCompartmentLink & biogears::SECompartmentManager::CreateThermalLink	(	SEThermalCompartment &	src,
		SEThermalCompartment &	tgt,
		const char *	name
	)

virtual

SEThermalCompartmentLink & biogears::SECompartmentManager::CreateThermalLink	(	SEThermalCompartment &	src,
		SEThermalCompartment &	tgt,
		const std::string &	name
	)

virtual

SETissueCompartment & biogears::SECompartmentManager::CreateTissueCompartment ( const char * name )

virtual

SETissueCompartment & biogears::SECompartmentManager::CreateTissueCompartment ( const std::string & name )

virtual

void biogears::SECompartmentManager::DeleteGasCompartment ( const char * name )

virtual

void biogears::SECompartmentManager::DeleteGasCompartment ( const std::string & name )

virtual

void biogears::SECompartmentManager::DeleteGasGraph ( const char * name )

virtual

void biogears::SECompartmentManager::DeleteGasGraph ( const std::string & name )

virtual

void biogears::SECompartmentManager::DeleteGasLink ( const char * name )

virtual

void biogears::SECompartmentManager::DeleteGasLink ( const std::string & name )

virtual

void biogears::SECompartmentManager::DeleteLiquidCompartment ( const char * name )

virtual

void biogears::SECompartmentManager::DeleteLiquidCompartment ( const std::string & name )

virtual

void biogears::SECompartmentManager::DeleteLiquidGraph ( const char * name )

virtual

void biogears::SECompartmentManager::DeleteLiquidGraph ( const std::string & name )

virtual

void biogears::SECompartmentManager::DeleteLiquidLink ( const char * name )

virtual

void biogears::SECompartmentManager::DeleteLiquidLink ( const std::string & name )

virtual

void biogears::SECompartmentManager::DeleteThermalCompartment ( const char * name )

virtual

void biogears::SECompartmentManager::DeleteThermalCompartment ( const std::string & name )

virtual

void biogears::SECompartmentManager::DeleteThermalLink ( const char * name )

virtual

void biogears::SECompartmentManager::DeleteThermalLink ( const std::string & name )

virtual

void biogears::SECompartmentManager::DeleteTissueCompartment ( const char * name )

virtual

void biogears::SECompartmentManager::DeleteTissueCompartment ( const std::string & name )

virtual

template<typename CompartmentType >

void biogears::SECompartmentManager::FindLeaves	(	CompartmentType *	cmpt,
		std::vector< CompartmentType * > &	leaves
	)		const

protected

template<typename CompartmentType , typename LinkType >

void biogears::SECompartmentManager::GetChildLinks	(	CompartmentType *	pnt,
		CompartmentType *	child
	)		const

protected

SECompartment * biogears::SECompartmentManager::GetCompartment	(	CDM::enumCompartmentType::value	type,
		const char *	name
	)

virtual

SECompartment * biogears::SECompartmentManager::GetCompartment	(	CDM::enumCompartmentType::value	type,
		const std::string &	name
	)

virtual

const SECompartment * biogears::SECompartmentManager::GetCompartment	(	CDM::enumCompartmentType::value	type,
		const char *	name
	)		const

virtual

const SECompartment * biogears::SECompartmentManager::GetCompartment	(	CDM::enumCompartmentType::value	type,
		const std::string &	name
	)		const

virtual

template<typename CompartmentType >

CompartmentType * biogears::SECompartmentManager::GetCompartment	(	const std::string &	name,
		std::map< std::string, CompartmentType * > &	name2cmpt
	)		const

protected

template<typename CompartmentType >

const CompartmentType * biogears::SECompartmentManager::GetCompartment	(	const std::string &	name,
		const std::map< std::string, CompartmentType * > &	name2cmpt
	)		const

protected

SEGasCompartment * biogears::SECompartmentManager::GetGasCompartment ( const char * name )

virtual

SEGasCompartment * biogears::SECompartmentManager::GetGasCompartment ( const std::string & name )

virtual

const SEGasCompartment * biogears::SECompartmentManager::GetGasCompartment ( const char * name ) const

virtual

const SEGasCompartment * biogears::SECompartmentManager::GetGasCompartment ( const std::string & name ) const

virtual

const std::vector< SEGasCompartment * > & biogears::SECompartmentManager::GetGasCompartments ( )

virtual

const std::vector< SESubstance * > & biogears::SECompartmentManager::GetGasCompartmentSubstances ( ) const

virtual

SEGasCompartmentGraph * biogears::SECompartmentManager::GetGasGraph ( const char * name )

virtual

SEGasCompartmentGraph * biogears::SECompartmentManager::GetGasGraph ( const std::string & name )

virtual

const SEGasCompartmentGraph * biogears::SECompartmentManager::GetGasGraph ( const char * name ) const

virtual

const SEGasCompartmentGraph * biogears::SECompartmentManager::GetGasGraph ( const std::string & name ) const

virtual

const std::vector< SEGasCompartmentGraph * > & biogears::SECompartmentManager::GetGasGraphs ( )

virtual

const std::vector< SEGasCompartment * > & biogears::SECompartmentManager::GetGasLeafCompartments ( )

virtual

SEGasCompartmentLink * biogears::SECompartmentManager::GetGasLink ( const char * name )

virtual

SEGasCompartmentLink * biogears::SECompartmentManager::GetGasLink ( const std::string & name )

virtual

const SEGasCompartmentLink * biogears::SECompartmentManager::GetGasLink ( const char * name ) const

virtual

const SEGasCompartmentLink * biogears::SECompartmentManager::GetGasLink ( const std::string & name ) const

virtual

const std::vector< SEGasCompartmentLink * > & biogears::SECompartmentManager::GetGasLinks ( )

virtual

template<typename LinkType >

LinkType * biogears::SECompartmentManager::GetLink	(	const std::string &	name,
		std::map< std::string, LinkType * > &	name2link
	)		const

protected

template<typename LinkType >

const LinkType * biogears::SECompartmentManager::GetLink	(	const std::string &	name,
		const std::map< std::string, LinkType * > &	name2link
	)		const

protected

SELiquidCompartment * biogears::SECompartmentManager::GetLiquidCompartment ( const char * name )

virtual

SELiquidCompartment * biogears::SECompartmentManager::GetLiquidCompartment ( const std::string & name )

virtual

const SELiquidCompartment * biogears::SECompartmentManager::GetLiquidCompartment ( const char * name ) const

virtual

const SELiquidCompartment * biogears::SECompartmentManager::GetLiquidCompartment ( const std::string & name ) const

virtual

const std::vector< SELiquidCompartment * > & biogears::SECompartmentManager::GetLiquidCompartments ( )

virtual

const std::vector< SESubstance * > & biogears::SECompartmentManager::GetLiquidCompartmentSubstances ( ) const

virtual

SELiquidCompartmentGraph * biogears::SECompartmentManager::GetLiquidGraph ( const char * name )

virtual

SELiquidCompartmentGraph * biogears::SECompartmentManager::GetLiquidGraph ( const std::string & name )

virtual

const SELiquidCompartmentGraph * biogears::SECompartmentManager::GetLiquidGraph ( const char * name ) const

virtual

const SELiquidCompartmentGraph * biogears::SECompartmentManager::GetLiquidGraph ( const std::string & name ) const

virtual

const std::vector< SELiquidCompartmentGraph * > & biogears::SECompartmentManager::GetLiquidGraphs ( )

virtual

const std::vector< SELiquidCompartment * > & biogears::SECompartmentManager::GetLiquidLeafCompartments ( )

virtual

SELiquidCompartmentLink * biogears::SECompartmentManager::GetLiquidLink ( const char * name )

virtual

SELiquidCompartmentLink * biogears::SECompartmentManager::GetLiquidLink ( const std::string & name )

virtual

const SELiquidCompartmentLink * biogears::SECompartmentManager::GetLiquidLink ( const char * name ) const

virtual

const SELiquidCompartmentLink * biogears::SECompartmentManager::GetLiquidLink ( const std::string & name ) const

virtual

const std::vector< SELiquidCompartmentLink * > & biogears::SECompartmentManager::GetLiquidLinks ( )

virtual

SEThermalCompartment * biogears::SECompartmentManager::GetThermalCompartment ( const char * name )

virtual

SEThermalCompartment * biogears::SECompartmentManager::GetThermalCompartment ( const std::string & name )

virtual

const SEThermalCompartment * biogears::SECompartmentManager::GetThermalCompartment ( const char * name ) const

virtual

const SEThermalCompartment * biogears::SECompartmentManager::GetThermalCompartment ( const std::string & name ) const

virtual

const std::vector< SEThermalCompartment * > & biogears::SECompartmentManager::GetThermalCompartments ( )

virtual

const std::vector< SEThermalCompartment * > & biogears::SECompartmentManager::GetThermalLeafCompartments ( )

virtual

SEThermalCompartmentLink * biogears::SECompartmentManager::GetThermalLink ( const char * name )

virtual

SEThermalCompartmentLink * biogears::SECompartmentManager::GetThermalLink ( const std::string & name )

virtual

const SEThermalCompartmentLink * biogears::SECompartmentManager::GetThermalLink ( const char * name ) const

virtual

const SEThermalCompartmentLink * biogears::SECompartmentManager::GetThermalLink ( const std::string & name ) const

virtual

const std::vector< SEThermalCompartmentLink * > & biogears::SECompartmentManager::GetThermalLinks ( )

virtual

SETissueCompartment * biogears::SECompartmentManager::GetTissueCompartment ( const char * name )

virtual

SETissueCompartment * biogears::SECompartmentManager::GetTissueCompartment ( const std::string & name )

virtual

const SETissueCompartment * biogears::SECompartmentManager::GetTissueCompartment ( const char * name ) const

virtual

const SETissueCompartment * biogears::SECompartmentManager::GetTissueCompartment ( const std::string & name ) const

virtual

const std::vector< SETissueCompartment * > & biogears::SECompartmentManager::GetTissueCompartments ( )

virtual

Reimplemented in biogears::BioGearsCompartments.

const std::vector< SETissueCompartment * > & biogears::SECompartmentManager::GetTissueLeafCompartments ( )

virtual

Reimplemented in biogears::BioGearsCompartments.

bool biogears::SECompartmentManager::HasCompartment	(	CDM::enumCompartmentType::value	type,
		const char *	name
	)		const

virtual

bool biogears::SECompartmentManager::HasCompartment	(	CDM::enumCompartmentType::value	type,
		const std::string &	name
	)		const

virtual

template<typename CompartmentType >

bool biogears::SECompartmentManager::HasCompartment	(	const std::string &	name,
		const std::map< std::string, CompartmentType * > &	name2cmpt
	)		const

protected

bool biogears::SECompartmentManager::HasGasCompartment ( const char * name ) const

virtual

bool biogears::SECompartmentManager::HasGasCompartment ( const std::string & name ) const

virtual

bool biogears::SECompartmentManager::HasGasGraph ( const char * name ) const

virtual

bool biogears::SECompartmentManager::HasGasGraph ( const std::string & name ) const

virtual

bool biogears::SECompartmentManager::HasGasLink ( const char * name ) const

virtual

bool biogears::SECompartmentManager::HasGasLink ( const std::string & name ) const

virtual

template<typename LinkType >

bool biogears::SECompartmentManager::HasLink	(	const std::string &	name,
		const std::map< std::string, LinkType * > &	name2link
	)		const

protected

bool biogears::SECompartmentManager::HasLiquidCompartment ( const char * name ) const

virtual

bool biogears::SECompartmentManager::HasLiquidCompartment ( const std::string & name ) const

virtual

bool biogears::SECompartmentManager::HasLiquidGraph ( const char * name ) const

virtual

bool biogears::SECompartmentManager::HasLiquidGraph ( const std::string & name ) const

virtual

bool biogears::SECompartmentManager::HasLiquidLink ( const char * name ) const

virtual

bool biogears::SECompartmentManager::HasLiquidLink ( const std::string & name ) const

virtual

bool biogears::SECompartmentManager::HasThermalCompartment ( const char * name ) const

virtual

bool biogears::SECompartmentManager::HasThermalCompartment ( const std::string & name ) const

virtual

bool biogears::SECompartmentManager::HasThermalLink ( const char * name ) const

virtual

bool biogears::SECompartmentManager::HasThermalLink ( const std::string & name ) const

virtual

bool biogears::SECompartmentManager::HasTissueCompartment ( const char * name ) const

virtual

bool biogears::SECompartmentManager::HasTissueCompartment ( const std::string & name ) const

virtual

bool biogears::SECompartmentManager::Load	(	const CDM::CompartmentManagerData &	in,
		SECircuitManager *	circuits = `nullptr`
	)

virtual

Reimplemented in biogears::BioGearsCompartments.

template<typename CompartmentType >

void biogears::SECompartmentManager::SetSubstances	(	CompartmentType &	cmpt,
		std::vector< SESubstance * > &	substances
	)		const

protected

void biogears::SECompartmentManager::StateChange ( )

virtual

Reimplemented in biogears::BioGearsCompartments.

CDM::CompartmentManagerData * biogears::SECompartmentManager::Unload ( ) const

virtual

void biogears::SECompartmentManager::Unload ( CDM::CompartmentManagerData & data ) const

protected

void biogears::SECompartmentManager::UpdateLinks ( )

virtual

void biogears::SECompartmentManager::UpdateLinks ( SEGasCompartmentGraph & graph )

virtual

void biogears::SECompartmentManager::UpdateLinks ( SELiquidCompartmentGraph & graph )

virtual

template<typename CompartmentType , typename LinkType >

void biogears::SECompartmentManager::UpdateLinks	(	const std::vector< CompartmentType * > &	compartments,
		const std::vector< LinkType * > &	links
	)		const

protected

Member Data Documentation

SESubstance* biogears::SECompartmentManager::m_CO

protected

SESubstance* biogears::SECompartmentManager::m_CO2

protected

std::vector<SEGasCompartment*> biogears::SECompartmentManager::m_GasCompartments

protected

std::vector<SEGasCompartmentGraph*> biogears::SECompartmentManager::m_GasGraphs

protected

std::vector<SEGasCompartment*> biogears::SECompartmentManager::m_GasLeafCompartments

protected

std::vector<SEGasCompartmentLink*> biogears::SECompartmentManager::m_GasLinks

protected

std::map<std::string, SEGasCompartment*> biogears::SECompartmentManager::m_GasName2Compartments

protected

std::map<std::string, SEGasCompartmentGraph*> biogears::SECompartmentManager::m_GasName2Graphs

protected

std::map<std::string, SEGasCompartmentLink*> biogears::SECompartmentManager::m_GasName2Links

protected

std::vector<SESubstance*> biogears::SECompartmentManager::m_GasSubstances

protected

SESubstance* biogears::SECompartmentManager::m_Hb

protected

SESubstance* biogears::SECompartmentManager::m_HbCO

protected

SESubstance* biogears::SECompartmentManager::m_HbCO2

protected

SESubstance* biogears::SECompartmentManager::m_HbO2

protected

SESubstance* biogears::SECompartmentManager::m_HbO2CO2

protected

std::vector<SELiquidCompartment*> biogears::SECompartmentManager::m_LiquidCompartments

protected

std::vector<SELiquidCompartmentGraph*> biogears::SECompartmentManager::m_LiquidGraphs

protected

std::vector<SELiquidCompartment*> biogears::SECompartmentManager::m_LiquidLeafCompartments

protected

std::vector<SELiquidCompartmentLink*> biogears::SECompartmentManager::m_LiquidLinks

protected

std::map<std::string, SELiquidCompartment*> biogears::SECompartmentManager::m_LiquidName2Compartments

protected

std::map<std::string, SELiquidCompartmentGraph*> biogears::SECompartmentManager::m_LiquidName2Graphs

protected

std::map<std::string, SELiquidCompartmentLink*> biogears::SECompartmentManager::m_LiquidName2Links

protected

std::vector<SESubstance*> biogears::SECompartmentManager::m_LiquidSubstances

protected

SESubstance* biogears::SECompartmentManager::m_O2

protected

SESubstanceManager& biogears::SECompartmentManager::m_subMgr

protected

std::vector<SEThermalCompartment*> biogears::SECompartmentManager::m_ThermalCompartments

protected

std::vector<SEThermalCompartment*> biogears::SECompartmentManager::m_ThermalLeafCompartments

protected

std::vector<SEThermalCompartmentLink*> biogears::SECompartmentManager::m_ThermalLinks

protected

std::map<std::string, SEThermalCompartment*> biogears::SECompartmentManager::m_ThermalName2Compartments

protected

std::map<std::string, SEThermalCompartmentLink*> biogears::SECompartmentManager::m_ThermalName2Links

protected

std::vector<SETissueCompartment*> biogears::SECompartmentManager::m_TissueCompartments

protected

std::vector<SETissueCompartment*> biogears::SECompartmentManager::m_TissueLeafCompartments

protected

std::map<std::string, SETissueCompartment*> biogears::SECompartmentManager::m_TissueName2Compartments

protected

Public Member Functions

Protected Member Functions

Protected Attributes

Additional Inherited Members

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation