PhysiologyEngineThunk Class Reference

#include <PhysiologyEngineThunk.h>

Inherits LoggerForward, and SEEventHandler.

Inherited by PulseEngineThunk.

Public Member Functions
PhysiologyEngineThunk (const std::string &dataDir="./")
virtual ~PhysiologyEngineThunk ()
virtual void Clear ()
bool SerializeFromFile (std::string const &filename, std::string const &data_requests, eSerializationFormat data_requests_format)
bool SerializeToFile (std::string const &filename)
bool SerializeFromString (std::string const &state, std::string const &data_requests, eSerializationFormat format)
std::string SerializeToString (eSerializationFormat format)
bool InitializeEngine (std::string const &patient_configuration, std::string const &data_requests, eSerializationFormat format)
std::string GetInitialPatient (eSerializationFormat format)
std::string GetConditions (eSerializationFormat format)
void LogToConsole (bool b)
void KeepLogMessages (bool keep)
void SetLogFilename (std::string const &logfile)
std::string PullLogMessages (eSerializationFormat format)
void SetLoggerForward (LoggerForward *lf)
void KeepEventChanges (bool keep)
std::string PullEvents (eSerializationFormat format)
std::string PullActiveEvents (eSerializationFormat format)
std::string GetPatientAssessment (int type, eSerializationFormat format)
void SetEventHandler (SEEventHandler *eh)
bool ProcessActions (std::string const &actions, eSerializationFormat format)
std::string PullActiveActions (eSerializationFormat format)
bool AdvanceTimeStep ()
double GetTimeStep (std::string const &unit)
size_t DataLength () const
double * PullDataPtr ()
void PullData (std::vector< double > &data)
void ForwardDebug (const std::string &msg) override
void ForwardInfo (const std::string &msg) override
void ForwardWarning (const std::string &msg) override
void ForwardError (const std::string &msg) override
void ForwardFatal (const std::string &msg) override
void HandleEvent (eEvent type, bool active, const SEScalarTime *time=nullptr) override
Public Member Functions inherited from LoggerForward
virtual ~LoggerForward ()=default
virtual void ForwardDebug (std::string const &)
virtual void ForwardInfo (std::string const &)
virtual void ForwardWarning (std::string const &)
virtual void ForwardError (std::string const &)
virtual void ForwardFatal (std::string const &)
Public Member Functions inherited from SEEventHandler
SEEventHandler ()
virtual ~SEEventHandler ()
virtual void HandleEvent (eEvent e, bool active, const SEScalarTime *simTime=nullptr)=0

Protected Member Functions
virtual void AllocateEngine ()=0
virtual void SetupDefaultDataRequests ()
virtual bool SetupRequests ()

Protected Attributes
std::unique_ptr< PhysiologyEngine > m_engine
SESubstanceManager * m_subMgr = nullptr
bool m_keepLogMsgs = false
bool m_keepEventChanges = false
LoggerForward * m_ForwardLogs =nullptr
SEEventHandler * m_ForwardEvents =nullptr
LogMessages m_logMsgs
std::string m_dataDir
std::vector< const SEEventChange * > m_events
std::vector< const SEActiveEvent * > m_activeEvents
size_t m_length
double * m_requestedData = nullptr
std::vector< double > m_requestedValues

Detailed Description

An instance of an engine where the interface is define in stl and base data types. This interface is a thunk layer using serialized cdm objects to drive a Pulse engine.

Constructor & Destructor Documentation

PhysiologyEngineThunk()

PhysiologyEngineThunk::PhysiologyEngineThunk

(

const std::string &

dataDir = "./"

)

~PhysiologyEngineThunk()

PhysiologyEngineThunk::~PhysiologyEngineThunk ( )

virtual

Member Function Documentation

AdvanceTimeStep()

bool PhysiologyEngineThunk::AdvanceTimeStep

(

)

AllocateEngine()

virtual void PhysiologyEngineThunk::AllocateEngine ( )

protectedpure virtual

Implemented in PulseEngineThunk.

Clear()

void PhysiologyEngineThunk::Clear ( )

virtual

DataLength()

size_t PhysiologyEngineThunk::DataLength

(

)

const

ForwardDebug()

void PhysiologyEngineThunk::ForwardDebug ( const std::string &  msg )

overridevirtual

Reimplemented from LoggerForward.

ForwardError()

void PhysiologyEngineThunk::ForwardError ( const std::string &  msg )

overridevirtual

Reimplemented from LoggerForward.

ForwardFatal()

void PhysiologyEngineThunk::ForwardFatal ( const std::string &  msg )

overridevirtual

Reimplemented from LoggerForward.

ForwardInfo()

void PhysiologyEngineThunk::ForwardInfo ( const std::string &  msg )

overridevirtual

Reimplemented from LoggerForward.

ForwardWarning()

void PhysiologyEngineThunk::ForwardWarning ( const std::string &  msg )

overridevirtual

Reimplemented from LoggerForward.

GetConditions()

std::string PhysiologyEngineThunk::GetConditions

(

eSerializationFormat

format

)

GetInitialPatient()

std::string PhysiologyEngineThunk::GetInitialPatient

(

eSerializationFormat

format

)

GetPatientAssessment()

std::string PhysiologyEngineThunk::GetPatientAssessment	(	int	type,
		eSerializationFormat	format
	)

GetTimeStep()

double PhysiologyEngineThunk::GetTimeStep

(

std::string const &

unit

)

HandleEvent()

void PhysiologyEngineThunk::HandleEvent ( eEvent  type, bool  active, const SEScalarTime *  time = nullptr  )

overridevirtual

Implements SEEventHandler.

InitializeEngine()

bool PhysiologyEngineThunk::InitializeEngine	(	std::string const &	patient_configuration,
		std::string const &	data_requests,
		eSerializationFormat	format
	)

KeepEventChanges()

void PhysiologyEngineThunk::KeepEventChanges

(

bool

keep

)

KeepLogMessages()

void PhysiologyEngineThunk::KeepLogMessages

(

bool

keep

)

LogToConsole()

void PhysiologyEngineThunk::LogToConsole

(

bool

b

)

ProcessActions()

bool PhysiologyEngineThunk::ProcessActions	(	std::string const &	actions,
		eSerializationFormat	format
	)

PullActiveActions()

std::string PhysiologyEngineThunk::PullActiveActions

(

eSerializationFormat

format

)

PullActiveEvents()

std::string PhysiologyEngineThunk::PullActiveEvents

(

eSerializationFormat

format

)

PullData()

void PhysiologyEngineThunk::PullData

(

std::vector< double > &

data

)

PullDataPtr()

double * PhysiologyEngineThunk::PullDataPtr

(

)

PullEvents()

std::string PhysiologyEngineThunk::PullEvents

(

eSerializationFormat

format

)

PullLogMessages()

std::string PhysiologyEngineThunk::PullLogMessages

(

eSerializationFormat

format

)

SerializeFromFile()

bool PhysiologyEngineThunk::SerializeFromFile	(	std::string const &	filename,
		std::string const &	data_requests,
		eSerializationFormat	data_requests_format
	)

SerializeFromString()

bool PhysiologyEngineThunk::SerializeFromString	(	std::string const &	state,
		std::string const &	data_requests,
		eSerializationFormat	format
	)

SerializeToFile()

bool PhysiologyEngineThunk::SerializeToFile

(

std::string const &

filename

)

SerializeToString()

std::string PhysiologyEngineThunk::SerializeToString

(

eSerializationFormat

format

)

SetEventHandler()

void PhysiologyEngineThunk::SetEventHandler ( SEEventHandler *  eh )

inline

SetLogFilename()

void PhysiologyEngineThunk::SetLogFilename

(

std::string const &

logfile

)

SetLoggerForward()

void PhysiologyEngineThunk::SetLoggerForward ( LoggerForward *  lf )

inline

SetupDefaultDataRequests()

void PhysiologyEngineThunk::SetupDefaultDataRequests ( )

protectedvirtual

SetupRequests()

bool PhysiologyEngineThunk::SetupRequests ( )

protectedvirtual

Member Data Documentation

m_activeEvents

std::vector<const SEActiveEvent*> PhysiologyEngineThunk::m_activeEvents

protected

m_dataDir

std::string PhysiologyEngineThunk::m_dataDir

protected

m_engine

std::unique_ptr<PhysiologyEngine> PhysiologyEngineThunk::m_engine

protected

m_events

std::vector<const SEEventChange*> PhysiologyEngineThunk::m_events

protected

m_ForwardEvents

SEEventHandler* PhysiologyEngineThunk::m_ForwardEvents =nullptr

protected

m_ForwardLogs

LoggerForward* PhysiologyEngineThunk::m_ForwardLogs =nullptr

protected

m_keepEventChanges

bool PhysiologyEngineThunk::m_keepEventChanges = false

protected

m_keepLogMsgs

bool PhysiologyEngineThunk::m_keepLogMsgs = false

protected

m_length

size_t PhysiologyEngineThunk::m_length

protected

m_logMsgs

LogMessages PhysiologyEngineThunk::m_logMsgs

protected

m_requestedData

double* PhysiologyEngineThunk::m_requestedData = nullptr

protected

m_requestedValues

std::vector<double> PhysiologyEngineThunk::m_requestedValues

protected

m_subMgr

SESubstanceManager* PhysiologyEngineThunk::m_subMgr = nullptr

protected