CODEExporter Class Reference

#include <CODEExporter.h>

Inheritance diagram for CODEExporter:

Public Types
enum	Object {   INITIAL = 0 , FIXED , ASSIGNMENT , HEADERS ,   FUNCTIONS , ODEs }

Public Member Functions
void	assembleSubTreeForMassAction (CEvaluationNode *newNode, CEvaluationNode *child1, CEvaluationNode *child2)
	CODEExporter ()
virtual bool	exportClosingData (const CModel *copasiModel, std::ostream &os)
virtual std::string	exportClosingString (const size_t tmp)
bool	exportCompartments (const CModel *copasiModel)
std::string	exportExpression (const CExpression *pExpression, const CDataModel *pDataModel)
virtual bool	exportKineticFunction (const CReaction *reac)
virtual bool	exportKineticFunctionGroup (const CModel *copasiModel)
virtual bool	exportMetabolites (const CModel *copasiModel)
virtual bool	exportMetabolitesConcentrations (const CModel *copasiModel)
bool	exportModelEntityExpression (const CDataObject *obj, const CDataModel *pDataModel)
bool	exportModelValues (const CModel *copasiModel)
bool	exportModelValuesExpressions (const CModel *copasiModel)
virtual std::string	exportNumber (double number)
void	exportObjectNodesFromModel (const CDataModel *pDataModel)
bool	exportODEs (const CModel *copasiModel)
bool	exportReacParamsAndFuncs (const CModel *copasiModel)
void	exportSimulatedObject (const CDataObject *obj, const CDataModel *pDataModel)
virtual bool	exportSingleCompartment (const CCompartment *comp, std::string &expression, std::string &comments)
bool	exportSingleFunction (CEvaluationNode *pNode, const CReaction *reac, size_t &index)
bool	exportSingleFunction (CEvaluationNode *pNode, const std::string &key, size_t &index)
bool	exportSingleFunction (const CFunction *func)
virtual bool	exportSingleFunction (const CFunction *func, std::set< std::string > &isExported)
virtual bool	exportSingleMetabolite (const CMetab *metab, std::string &expression, std::string &comments)
virtual bool	exportSingleModelEntity (const CModelEntity *tmp, std::string &expression, std::string &comments)
virtual bool	exportSingleModVal (const CModelValue *modval, std::string &expression, std::string &comments)
virtual bool	exportSingleObject (std::ostringstream &which, const std::string &name, const std::string &expression, const std::string &comments)
virtual bool	exportSingleODE (const CModelEntity *mentity, std::string &equation, std::string &comments)
virtual bool	exportSingleParameter (const CCopasiParameter *param, std::string &expression, std::string &comments)
virtual bool	exportTitleData (const CModel *copasiModel, std::ostream &os)
virtual std::string	exportTitleString (const size_t tmp)
bool	exportToStream (const CDataModel *pDataModel, std::ostream &os)
void	findFunctionsCalls (const CEvaluationNode *pNode)
virtual std::string	getDisplayExpressionString (CExpression *tmp)
virtual std::string	getDisplayFunctionString (CFunction *func)
virtual std::string	getSingleLineComment ()
virtual bool	isEmptyString (std::string &str)
std::string	isModelEntityExpressionODEExporterCompatible (const CModelEntity *tmp, const CExpression *pExpression, const CDataModel *pDataModel)
virtual std::string	KineticFunction2ODEmember (const CReaction *reac)
void	modifyTreeForMassAction (CFunction *tmpfunc)
virtual bool	preprocess (const CModel *copasiModel)
virtual std::string	setConcentrationName (const std::string &objName)
virtual std::string	setODEName (const std::string &objName)
virtual void	setReservedNames ()
virtual std::string	translateObjectName (const std::string &realName)
virtual std::string	translateTimeVariableName ()
virtual	~CODEExporter ()

Public Attributes
std::ostringstream	assignment
std::map< std::string, std::string >	equations
std::ostringstream	fixed
std::ostringstream	functions
std::ostringstream	headers
std::ostringstream	initial
std::map< std::string, std::string >	NameMap
std::ostringstream	ode
std::string	timeKey

Protected Attributes
std::set< std::string >	mExportedFunctions

Member Enumeration Documentation

Object

enum CODEExporter::Object

Enumerator
INITIAL
FIXED
ASSIGNMENT
HEADERS
FUNCTIONS
ODEs

Constructor & Destructor Documentation

CODEExporter()

CODEExporter::CODEExporter

(

)

Constructor for the exporter.

~CODEExporter()

CODEExporter::~CODEExporter ( )

virtual

Destructor for the exporter.

Member Function Documentation

assembleSubTreeForMassAction()

void CODEExporter::assembleSubTreeForMassAction	(	CEvaluationNode *	newNode,
		CEvaluationNode *	child1,
		CEvaluationNode *	child2
	)

This method assembles an expression sub tree for some internal call of Mass Action. The sub tree has to be included in the tree of corresponding root kinetic function in order to export this function whithout the user defined internall Mass Action calls

References CCopasiNode< _Data >::addChild(), CEvaluationNode::copyBranch(), CEvaluationNode::create(), CEvaluationNode::mainType(), CEvaluationNode::MULTIPLY, CEvaluationNode::OPERATOR, CEvaluationNode::VARIABLE, and CEvaluationNode::VECTOR.

Referenced by modifyTreeForMassAction().

exportClosingData()

bool CODEExporter::exportClosingData ( const CModel *  copasiModel, std::ostream &  os  )

virtual

Reimplemented in CODEExporterXPPAUT.

Referenced by exportToStream().

exportClosingString()

std::string CODEExporter::exportClosingString ( const size_t  tmp )

virtual

Reimplemented in CODEExporterC.

Referenced by exportToStream().

exportCompartments()

bool CODEExporter::exportCompartments

(

const CModel *

copasiModel

)

References CModelEntity::ASSIGNMENT, exportNumber(), exportSingleCompartment(), CModelEntity::FIXED, CModel::getCompartments(), CModelEntity::getInitialValue(), CDataObject::getObjectName(), CModelEntity::getStatus(), CModelEntity::ODE, CDataVector< CType >::size(), and CModelEntity::StatusName.

Referenced by exportToStream().

exportExpression()

std::string CODEExporter::exportExpression	(	const CExpression *	pExpression,
		const CDataModel *	pDataModel
	)

References C_INVALID_INDEX, CEvaluationNode::CALL, CObjectInterface::DataObject(), equations, exportNumber(), CEvaluationNodeCall::getCalledTree(), getDisplayExpressionString(), CMetab::getInitialConcentration(), CModelEntity::getInitialValue(), CDataObject::getKey(), CFunction::getKey(), CModelEntity::getKey(), CModel::getMetabolitesX(), CDataModel::getModel(), CEvaluationTree::getNodeList(), CModel::getNumIndependentReactionMetabs(), CModel::getNumODEMetabs(), CEvaluationNodeObject::getObjectCN(), CDataObject::getObjectFromCN(), CDataObject::getObjectName(), CDataObject::getObjectParent(), CDataObject::getObjectType(), CTrajectoryProblem::getOutputStartTime(), CCopasiTask::getProblem(), CModel::getQuantity2NumberFactor(), getQuantityParameterOrValue(), getReactionIndex(), CModel::getReactions(), CModel::getRedStoi(), CModelEntity::getStatus(), CDataObject::hasFlag(), CMetab::isDependent(), isEmptyString(), NameMap, CEvaluationNode::OBJECT, CModelEntity::ODE, CModelEntity::REACTIONS, CDataObject::Reference, and timeKey.

Referenced by exportModelEntityExpression().

exportKineticFunction()

bool CODEExporter::exportKineticFunction ( const CReaction *  reac )

virtual

Reimplemented in CODEExporterC.

References exportSingleFunction(), exportSingleObject(), functions, CReaction::getChemEq(), getDisplayFunctionString(), CReaction::getFunction(), CDataObject::getKey(), CReaction::getKey(), CModelEntity::getKey(), CCopasiParameter::getKey(), CChemEqElement::getMetaboliteKey(), CChemEqElement::getMultiplicity(), CDataObject::getObjectName(), CReaction::getParameterObjects(), CChemEq::getProducts(), CEvaluationTree::getRoot(), CChemEq::getSubstrates(), CEvaluationTree::getType(), CFunction::getVariableIndex(), CFunction::getVariables(), CReaction::isLocalParameter(), CFunction::isReversible(), CEvaluationTree::MassAction, CFunctionParameter::MODIFIER, modifyTreeForMassAction(), NameMap, NO_PARENT, CFunctionParameter::PARAMETER, CFunctionParameter::PRODUCT, CDataVector< CType >::size(), CFunctionParameter::SUBSTRATE, CFunctionParameter::TIME, timeKey, translateObjectName(), TriTrue, CEvaluationNode::VARIABLE, and CFunctionParameter::VOLUME.

Referenced by exportReacParamsAndFuncs().

exportKineticFunctionGroup()

bool CODEExporter::exportKineticFunctionGroup ( const CModel *  copasiModel )

virtual

Reimplemented in CODEExporterC.

Referenced by exportToStream().

exportMetabolites()

bool CODEExporter::exportMetabolites ( const CModel *  copasiModel )

virtual

References CModelEntity::ASSIGNMENT, C_FLOAT64, exportNumber(), exportSingleMetabolite(), exportSingleObject(), CModelEntity::FIXED, fixed, CMetab::getCompartment(), CMetabNameInterface::getDisplayName(), CMetab::getInitialConcentration(), CModelEntity::getInitialValue(), CDataObject::getKey(), CModel::getL(), CModel::getMetabolitesX(), CModel::getNumIndependentReactionMetabs(), CModel::getNumODEMetabs(), CDataObject::getObjectName(), CModelEntity::getStatus(), CMetab::isDependent(), NameMap, CModelEntity::ODE, CModelEntity::REACTIONS, CDataVector< CType >::size(), and CModelEntity::StatusName.

Referenced by exportToStream().

exportMetabolitesConcentrations()

bool CODEExporter::exportMetabolitesConcentrations ( const CModel *  copasiModel )

virtual

References assignment, exportSingleObject(), CMetabNameInterface::getDisplayName(), CDataObject::getKey(), CModelEntity::getKey(), CModel::getMetabolitesX(), CModelEntity::getStatus(), NameMap, CDataVector< CType >::size(), and CModelEntity::StatusName.

Referenced by exportToStream().

exportModelEntityExpression()

bool CODEExporter::exportModelEntityExpression	(	const CDataObject *	obj,
		const CDataModel *	pDataModel
	)

References CModelEntity::ASSIGNMENT, equations, exportExpression(), exportSingleModelEntity(), exportSingleODE(), findFunctionsCalls(), CModelEntity::FIXED, CMetab::getCompartment(), CModelEntity::getExpressionPtr(), CModelEntity::getKey(), CDataObject::getObjectName(), CDataObject::getObjectParent(), CDataObject::getObjectType(), CEvaluationTree::getRoot(), CModelEntity::getStatus(), CDataObject::hasFlag(), isEmptyString(), isModelEntityExpressionODEExporterCompatible(), NameMap, CModelEntity::ODE, CDataObject::Reference, and CModelEntity::StatusName.

Referenced by exportModelValuesExpressions(), and exportSimulatedObject().

exportModelValues()

bool CODEExporter::exportModelValues

(

const CModel *

copasiModel

)

References CModelEntity::ASSIGNMENT, exportNumber(), exportSingleModVal(), CModelEntity::FIXED, CModelEntity::getInitialValue(), CModel::getModelValues(), CDataObject::getObjectName(), CModelEntity::getStatus(), CModelEntity::ODE, CDataVector< CType >::size(), and CModelEntity::StatusName.

Referenced by exportToStream().

exportModelValuesExpressions()

bool CODEExporter::exportModelValuesExpressions

(

const CModel *

copasiModel

)

References CModelEntity::ASSIGNMENT, exportModelEntityExpression(), findFunctionsCalls(), CModel::getCompartments(), CModelEntity::getExpressionPtr(), CModel::getMetabolites(), CModel::getModelValues(), CModel::getNumMetabs(), CModel::getNumModelValues(), CDataObject::getObjectDataModel(), CEvaluationTree::getRoot(), CModelEntity::getStatus(), and CDataVector< CType >::size().

Referenced by exportToStream().

exportNumber()

std::string CODEExporter::exportNumber ( double  number )

virtual

Reimplemented in CODEExporterC.

Referenced by exportCompartments(), exportExpression(), exportMetabolites(), and exportModelValues().

exportObjectNodesFromModel()

void CODEExporter::exportObjectNodesFromModel

(

const CDataModel *

pDataModel

)

References CMathUpdateSequence::begin(), CMathUpdateSequence::end(), exportSimulatedObject(), CDataObject::getDataObject(), CModel::getMathContainer(), CDataModel::getModel(), and CMathContainer::getSimulationValuesSequence().

Referenced by exportToStream().

exportODEs()

bool CODEExporter::exportODEs

(

const CModel *

copasiModel

)

References equations, exportSingleODE(), CModelEntity::getKey(), CModel::getMetabolitesX(), CModel::getNumIndependentReactionMetabs(), CModel::getNumODEMetabs(), CModelEntity::getStatus(), CMetab::isDependent(), CModelEntity::REACTIONS, and CDataVector< CType >::size().

Referenced by exportToStream().

exportReacParamsAndFuncs()

bool CODEExporter::exportReacParamsAndFuncs

(

const CModel *

copasiModel

)

References C_FLOAT64, CReaction::ConcentrationPerTime, equations, exportKineticFunction(), exportSingleParameter(), CReaction::getEffectiveKineticLawUnitType(), CDataObject::getKey(), CModel::getMetabolitesX(), CModel::getNumIndependentReactionMetabs(), CModel::getNumODEMetabs(), CDataObject::getObjectName(), CCopasiParameterGroup::getParameter(), CReaction::getParameters(), CModel::getReactions(), CModel::getRedStoi(), CCopasiParameter::getValue(), isEmptyString(), CReaction::isLocalParameter(), KineticFunction2ODEmember(), NameMap, CDataVector< CType >::size(), and CCopasiParameterGroup::size().

Referenced by exportToStream().

exportSimulatedObject()

void CODEExporter::exportSimulatedObject	(	const CDataObject *	obj,
		const CDataModel *	pDataModel
	)

References exportModelEntityExpression(), CDataObject::getObjectName(), CDataObject::getObjectParent(), CDataObject::getObjectType(), CDataObject::hasFlag(), and CDataObject::Reference.

Referenced by exportObjectNodesFromModel().

exportSingleCompartment()

bool CODEExporter::exportSingleCompartment ( const CCompartment *  comp, std::string &  expression, std::string &  comments  )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportCompartments().

exportSingleFunction() [1/4]

bool CODEExporter::exportSingleFunction	(	CEvaluationNode *	pNode,
		const CReaction *	reac,
		size_t &	index
	)

References exportSingleFunction(), and CReaction::getKey().

exportSingleFunction() [2/4]

bool CODEExporter::exportSingleFunction	(	CEvaluationNode *	pNode,
		const std::string &	key,
		size_t &	index
	)

References CCopasiNode< _Data >::addChild(), CEvaluationNode::CALL, CEvaluationNode::copyBranch(), exportSingleFunction(), exportSingleObject(), CFunctionDB::findFunction(), functions, getDisplayFunctionString(), CRootContainer::getFunctionList(), CDataObject::getObjectName(), CEvaluationTree::getRoot(), CFunction::getVariableIndex(), modifyTreeForMassAction(), NameMap, NO_PARENT, CCopasiNode< _Data >::removeChild(), translateObjectName(), and CEvaluationNode::VARIABLE.

exportSingleFunction() [3/4]

bool CODEExporter::exportSingleFunction

(

const CFunction *

func

)

References mExportedFunctions.

Referenced by exportKineticFunction(), CODEExporterC::exportKineticFunctionGroup(), exportSingleFunction(), and findFunctionsCalls().

exportSingleFunction() [4/4]

bool CODEExporter::exportSingleFunction ( const CFunction *  func, std::set< std::string > &  isExported  )

virtual

Reimplemented in CODEExporterC.

exportSingleMetabolite()

bool CODEExporter::exportSingleMetabolite ( const CMetab *  metab, std::string &  expression, std::string &  comments  )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportMetabolites().

exportSingleModelEntity()

bool CODEExporter::exportSingleModelEntity ( const CModelEntity *  tmp, std::string &  expression, std::string &  comments  )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportModelEntityExpression().

exportSingleModVal()

bool CODEExporter::exportSingleModVal ( const CModelValue *  modval, std::string &  expression, std::string &  comments  )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportModelValues().

exportSingleObject()

bool CODEExporter::exportSingleObject ( std::ostringstream &  which, const std::string &  name, const std::string &  expression, const std::string &  comments  )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportKineticFunction(), exportMetabolites(), exportMetabolitesConcentrations(), and exportSingleFunction().

exportSingleODE()

bool CODEExporter::exportSingleODE ( const CModelEntity *  mentity, std::string &  equation, std::string &  comments  )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportModelEntityExpression(), and exportODEs().

exportSingleParameter()

bool CODEExporter::exportSingleParameter ( const CCopasiParameter *  param, std::string &  expression, std::string &  comments  )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportReacParamsAndFuncs().

exportTitleData()

bool CODEExporter::exportTitleData ( const CModel *  copasiModel, std::ostream &  os  )

virtual

Reimplemented in CODEExporterC.

Referenced by exportToStream().

exportTitleString()

std::string CODEExporter::exportTitleString ( const size_t  tmp )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportToStream().

exportToStream()

bool CODEExporter::exportToStream	(	const CDataModel *	pDataModel,
		std::ostream &	os
	)

References assignment, ASSIGNMENT, exportClosingData(), exportClosingString(), exportCompartments(), exportKineticFunctionGroup(), exportMetabolites(), exportMetabolitesConcentrations(), exportModelValues(), exportModelValuesExpressions(), exportObjectNodesFromModel(), exportODEs(), exportReacParamsAndFuncs(), exportTitleData(), exportTitleString(), fixed, FIXED, functions, FUNCTIONS, CDataModel::getModel(), headers, HEADERS, initial, INITIAL, mExportedFunctions, ode, ODEs, and preprocess().

Referenced by CDataModel::exportMathModel(), and CDataModel::exportMathModelToString().

findFunctionsCalls()

void CODEExporter::findFunctionsCalls

(

const CEvaluationNode *

pNode

)

References CEvaluationNode::CALL, exportSingleFunction(), CFunctionDB::findFunction(), CRootContainer::getFunctionList(), CEvaluationTree::getRoot(), CEvaluationTree::getType(), and CEvaluationTree::MassAction.

Referenced by CODEExporterC::exportKineticFunctionGroup(), exportModelEntityExpression(), and exportModelValuesExpressions().

getDisplayExpressionString()

std::string CODEExporter::getDisplayExpressionString ( CExpression *  tmp )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportExpression().

getDisplayFunctionString()

std::string CODEExporter::getDisplayFunctionString ( CFunction *  func )

virtual

Reimplemented in CODEExporterXPPAUT, and CODEExporterBM.

Referenced by exportKineticFunction(), and exportSingleFunction().

getSingleLineComment()

std::string CODEExporter::getSingleLineComment ( )

virtual

Reimplemented in CODEExporterC.

Referenced by isModelEntityExpressionODEExporterCompatible().

isEmptyString()

bool CODEExporter::isEmptyString ( std::string &  str )

virtual

This method tests if a string consists only of whitespace characters

Referenced by exportExpression(), exportModelEntityExpression(), exportReacParamsAndFuncs(), and CODEExporterXPPAUT::exportSingleODE().

isModelEntityExpressionODEExporterCompatible()

std::string CODEExporter::isModelEntityExpressionODEExporterCompatible	(	const CModelEntity *	tmp,
		const CExpression *	pExpression,
		const CDataModel *	pDataModel
	)

References CObjectInterface::DataObject(), CEvaluationTree::getNodeList(), CEvaluationNodeObject::getObjectCN(), CObjectInterface::GetObjectFromCN(), CDataObject::getObjectName(), CDataObject::getObjectParent(), CDataObject::getObjectType(), getSingleLineComment(), CModelEntity::getStatus(), CDataObject::hasFlag(), CMetab::isDependent(), CEvaluationNode::OBJECT, CModelEntity::REACTIONS, and CDataObject::Reference.

Referenced by exportModelEntityExpression().

KineticFunction2ODEmember()

std::string CODEExporter::KineticFunction2ODEmember ( const CReaction *  reac )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportReacParamsAndFuncs().

modifyTreeForMassAction()

void CODEExporter::modifyTreeForMassAction

(

CFunction *

tmpfunc

)

This method modifies the export tree of the function for internal calls of Mass Action

References CCopasiNode< _Data >::addChild(), assembleSubTreeForMassAction(), CEvaluationNode::CALL, CEvaluationNode::create(), CFunctionDB::findFunction(), CRootContainer::getFunctionList(), CDataObject::getObjectName(), CEvaluationTree::getRoot(), CEvaluationTree::getType(), CEvaluationTree::MassAction, CEvaluationNode::MINUS, CEvaluationNode::MULTIPLY, CEvaluationNode::OPERATOR, and CCopasiNode< _Data >::removeChild().

Referenced by exportKineticFunction(), exportSingleFunction(), and CODEExporterC::exportSingleFunction().

preprocess()

bool CODEExporter::preprocess ( const CModel *  copasiModel )

virtual

Reimplemented in CODEExporterC.

References CModel::getCompartments(), CModelEntity::getKey(), CCopasiParameter::getKey(), CModel::getMetabolitesX(), CModel::getModelValues(), CDataObject::getObjectName(), CModel::getReactions(), CModelEntity::getStatus(), CMetab::isDependent(), NameMap, CModelEntity::ODE, CModelEntity::REACTIONS, setConcentrationName(), setODEName(), setReservedNames(), CDataVector< CType >::size(), timeKey, translateObjectName(), and translateTimeVariableName().

Referenced by exportToStream().

setConcentrationName()

std::string CODEExporter::setConcentrationName ( const std::string &  objName )

virtual

Reimplemented in CODEExporterXPPAUT, and CODEExporterBM.

Referenced by preprocess().

setODEName()

std::string CODEExporter::setODEName ( const std::string &  objName )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by preprocess().

setReservedNames()

void CODEExporter::setReservedNames ( )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by preprocess().

translateObjectName()

std::string CODEExporter::translateObjectName ( const std::string &  realName )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by exportKineticFunction(), exportSingleFunction(), and preprocess().

translateTimeVariableName()

std::string CODEExporter::translateTimeVariableName ( )

virtual

Reimplemented in CODEExporterXPPAUT, CODEExporterC, and CODEExporterBM.

Referenced by preprocess().

Member Data Documentation

assignment

std::ostringstream CODEExporter::assignment

Referenced by exportMetabolitesConcentrations(), CODEExporterBM::exportSingleCompartment(), CODEExporterC::exportSingleCompartment(), CODEExporterXPPAUT::exportSingleCompartment(), CODEExporterBM::exportSingleMetabolite(), CODEExporterC::exportSingleMetabolite(), CODEExporterXPPAUT::exportSingleMetabolite(), CODEExporterBM::exportSingleModelEntity(), CODEExporterC::exportSingleModelEntity(), CODEExporterXPPAUT::exportSingleModelEntity(), CODEExporterBM::exportSingleModVal(), CODEExporterC::exportSingleModVal(), CODEExporterXPPAUT::exportSingleModVal(), and exportToStream().

equations

std::map< std::string, std::string > CODEExporter::equations

Referenced by exportExpression(), exportModelEntityExpression(), exportODEs(), and exportReacParamsAndFuncs().

fixed

std::ostringstream CODEExporter::fixed

Referenced by exportMetabolites(), CODEExporterBM::exportSingleCompartment(), CODEExporterC::exportSingleCompartment(), CODEExporterXPPAUT::exportSingleCompartment(), CODEExporterBM::exportSingleMetabolite(), CODEExporterC::exportSingleMetabolite(), CODEExporterXPPAUT::exportSingleMetabolite(), CODEExporterBM::exportSingleModelEntity(), CODEExporterC::exportSingleModelEntity(), CODEExporterXPPAUT::exportSingleModelEntity(), CODEExporterBM::exportSingleModVal(), CODEExporterC::exportSingleModVal(), CODEExporterXPPAUT::exportSingleModVal(), CODEExporterBM::exportSingleParameter(), CODEExporterC::exportSingleParameter(), CODEExporterXPPAUT::exportSingleParameter(), and exportToStream().

functions

std::ostringstream CODEExporter::functions

Referenced by exportKineticFunction(), exportSingleFunction(), CODEExporterC::exportSingleFunction(), and exportToStream().

headers

std::ostringstream CODEExporter::headers

Referenced by CODEExporterC::exportSingleFunction(), and exportToStream().

initial

std::ostringstream CODEExporter::initial

Referenced by CODEExporterBM::exportSingleCompartment(), CODEExporterC::exportSingleCompartment(), CODEExporterXPPAUT::exportSingleCompartment(), CODEExporterBM::exportSingleMetabolite(), CODEExporterC::exportSingleMetabolite(), CODEExporterXPPAUT::exportSingleMetabolite(), CODEExporterBM::exportSingleModelEntity(), CODEExporterC::exportSingleModelEntity(), CODEExporterXPPAUT::exportSingleModelEntity(), CODEExporterBM::exportSingleModVal(), CODEExporterC::exportSingleModVal(), CODEExporterXPPAUT::exportSingleModVal(), and exportToStream().

mExportedFunctions

std::set<std::string> CODEExporter::mExportedFunctions

protected

Referenced by exportSingleFunction(), and exportToStream().

NameMap

std::map< std::string, std::string > CODEExporter::NameMap

Referenced by exportExpression(), exportKineticFunction(), exportMetabolites(), exportMetabolitesConcentrations(), exportModelEntityExpression(), exportReacParamsAndFuncs(), CODEExporterBM::exportSingleCompartment(), CODEExporterC::exportSingleCompartment(), CODEExporterXPPAUT::exportSingleCompartment(), exportSingleFunction(), CODEExporterC::exportSingleFunction(), CODEExporterBM::exportSingleMetabolite(), CODEExporterC::exportSingleMetabolite(), CODEExporterXPPAUT::exportSingleMetabolite(), CODEExporterBM::exportSingleModelEntity(), CODEExporterC::exportSingleModelEntity(), CODEExporterXPPAUT::exportSingleModelEntity(), CODEExporterBM::exportSingleModVal(), CODEExporterC::exportSingleModVal(), CODEExporterXPPAUT::exportSingleModVal(), CODEExporterBM::exportSingleODE(), CODEExporterC::exportSingleODE(), CODEExporterXPPAUT::exportSingleODE(), CODEExporterBM::exportSingleParameter(), CODEExporterC::exportSingleParameter(), CODEExporterXPPAUT::exportSingleParameter(), CODEExporterC::exportTitleData(), CODEExporterBM::KineticFunction2ODEmember(), CODEExporterC::KineticFunction2ODEmember(), CODEExporterXPPAUT::KineticFunction2ODEmember(), preprocess(), CODEExporterC::preprocess(), and CODEExporterC::setExportNameOfFunction().

ode

std::ostringstream CODEExporter::ode

Referenced by CODEExporterBM::exportSingleODE(), CODEExporterC::exportSingleODE(), CODEExporterXPPAUT::exportSingleODE(), and exportToStream().

timeKey

std::string CODEExporter::timeKey

Referenced by exportExpression(), exportKineticFunction(), preprocess(), and CODEExporterC::preprocess().

---

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

• CODEExporter.h
• CODEExporter.cpp