ModelDefinition Member List

This is the complete list of members for ModelDefinition, including all inherited members.

addCompartment(const Compartment *c)	Model
addCompartmentType(const CompartmentType *ct)	Model
addConstraint(const Constraint *c)	Model
addCVTerm(CVTerm *term, bool newBag=false)	SBase
addEvent(const Event *e)	Model
addFunctionDefinition(const FunctionDefinition *fd)	Model
addInitialAssignment(const InitialAssignment *ia)	Model
addParameter(const Parameter *p)	Model
addReaction(const Reaction *r)	Model
addRule(const Rule *r)	Model
addSpecies(const Species *s)	Model
addSpeciesType(const SpeciesType *st)	Model
addUnitDefinition(const UnitDefinition *ud)	Model
appendAnnotation(const XMLNode *annotation)	Model	virtual
appendAnnotation(const std::string &annotation)	Model	virtual
appendFrom(const Model *model)	Model	virtual
appendNotes(const XMLNode *notes)	SBase
appendNotes(const std::string &notes)	SBase
clearAllElementIdList()	Model
clearAllElementMetaIdList()	Model
clone() const	ModelDefinition	virtual
createAlgebraicRule()	Model
createAssignmentRule()	Model
createCompartment()	Model
createCompartmentType()	Model
createConstraint()	Model
createDelay()	Model
createEvent()	Model
createEventAssignment()	Model
createFunctionDefinition()	Model
createInitialAssignment()	Model
createKineticLaw()	Model
createKineticLawLocalParameter()	Model
createKineticLawParameter()	Model
createModifier()	Model
createParameter()	Model
createProduct()	Model
createRateRule()	Model
createReactant()	Model
createReaction()	Model
createSpecies()	Model
createSpeciesType()	Model
createTrigger()	Model
createUnit()	Model
createUnitDefinition()	Model
deleteDisabledPlugins(bool recursive=true)	SBase
disablePackage(const std::string &pkgURI, const std::string &pkgPrefix)	SBase
enablePackage(const std::string &pkgURI, const std::string &pkgPrefix, bool flag)	SBase
getAllElementIdList() const	Model
getAllElementMetaIdList() const	Model
getAllElements(ElementFilter *filter=NULL)	Model	virtual
getAllElementsFromPlugins(ElementFilter *filter=NULL)	SBase	virtual
getAncestorOfType(int type, const std::string &pkgName="core")	SBase
getAncestorOfType(int type, const std::string pkgName="core") const	SBase
getAnnotation()	SBase
getAnnotation() const	SBase
getAnnotationString()	SBase
getAnnotationString() const	SBase
getAreaUnits() const	Model
getAssignmentRule(const std::string &variable) const	Model
getAssignmentRule(const std::string &variable)	Model
getAssignmentRuleByVariable(const std::string &variable) const	Model
getAssignmentRuleByVariable(const std::string &variable)	Model
getColumn() const	SBase
getCompartment(unsigned int n) const	Model
getCompartment(unsigned int n)	Model
getCompartment(const std::string &sid) const	Model
getCompartment(const std::string &sid)	Model
getCompartmentType(unsigned int n) const	Model
getCompartmentType(unsigned int n)	Model
getCompartmentType(const std::string &sid) const	Model
getCompartmentType(const std::string &sid)	Model
getConstraint(unsigned int n) const	Model
getConstraint(unsigned int n)	Model
getConversionFactor() const	Model
getCVTerm(unsigned int n)	SBase
getCVTerms()	SBase
getCVTerms() const	SBase
getDisabledPlugin(unsigned int n)	SBase
getDisabledPlugin(unsigned int n) const	SBase
getElementByMetaId(const std::string &metaid)	Model	virtual
SBase::getElementByMetaId(const std::string &metaid) const	SBase
getElementBySId(const std::string &id)	Model	virtual
SBase::getElementBySId(const std::string &id) const	SBase
getElementName() const	ModelDefinition	virtual
getEvent(unsigned int n) const	Model
getEvent(unsigned int n)	Model
getEvent(const std::string &sid) const	Model
getEvent(const std::string &sid)	Model
getExtentUnits() const	Model
getFunctionDefinition(unsigned int n) const	Model
getFunctionDefinition(unsigned int n)	Model
getFunctionDefinition(const std::string &sid) const	Model
getFunctionDefinition(const std::string &sid)	Model
getId() const	Model	virtual
getIdAttribute() const	SBase
getInitialAssignment(unsigned int n) const	Model
getInitialAssignment(unsigned int n)	Model
getInitialAssignment(const std::string &symbol) const	Model
getInitialAssignment(const std::string &symbol)	Model
getInitialAssignmentBySymbol(const std::string &symbol) const	Model
getInitialAssignmentBySymbol(const std::string &symbol)	Model
getLengthUnits() const	Model
getLevel() const	SBase
getLine() const	SBase
getListOfCompartments() const	Model
getListOfCompartments()	Model
getListOfCompartmentTypes() const	Model
getListOfCompartmentTypes()	Model
getListOfConstraints() const	Model
getListOfConstraints()	Model
getListOfEvents() const	Model
getListOfEvents()	Model
getListOfFunctionDefinitions() const	Model
getListOfFunctionDefinitions()	Model
getListOfInitialAssignments() const	Model
getListOfInitialAssignments()	Model
getListOfParameters() const	Model
getListOfParameters()	Model
getListOfReactions() const	Model
getListOfReactions()	Model
getListOfRules() const	Model
getListOfRules()	Model
getListOfSpecies() const	Model
getListOfSpecies()	Model
getListOfSpeciesTypes() const	Model
getListOfSpeciesTypes()	Model
getListOfUnitDefinitions() const	Model
getListOfUnitDefinitions()	Model
getMetaId() const	SBase
getMetaId()	SBase
getModel() const	SBase
getModelHistory() const	SBase
getModelHistory()	SBase
getModifierSpeciesReference(const std::string &sid)	Model
getModifierSpeciesReference(const std::string &sid) const	Model
getName() const	Model	virtual
getNamespaces() const	SBase	virtual
getNotes()	SBase
getNotes() const	SBase
getNotesString()	SBase
getNotesString() const	SBase
getNumCompartments() const	Model
getNumCompartmentTypes() const	Model
getNumConstraints() const	Model
getNumCVTerms()	SBase
getNumDisabledPlugins() const	SBase
getNumEvents() const	Model
getNumFunctionDefinitions() const	Model
getNumInitialAssignments() const	Model
getNumParameters() const	Model
getNumPlugins() const	SBase
getNumReactions() const	Model
getNumRules() const	Model
getNumSpecies() const	Model
getNumSpeciesTypes() const	Model
getNumSpeciesWithBoundaryCondition() const	Model
getNumUnitDefinitions() const	Model
getPackageCoreVersion() const	SBase
getPackageName() const	SBase
getPackageVersion() const	SBase
getParameter(unsigned int n) const	Model
getParameter(unsigned int n)	Model
getParameter(const std::string &sid) const	Model
getParameter(const std::string &sid)	Model
getParentSBMLObject()	SBase
getParentSBMLObject() const	SBase
getPlugin(const std::string &package)	SBase
getPlugin(const std::string &package) const	SBase
getPlugin(unsigned int n)	SBase
getPlugin(unsigned int n) const	SBase
getPrefix() const	SBase
getRateRule(const std::string &variable) const	Model
getRateRule(const std::string &variable)	Model
getRateRuleByVariable(const std::string &variable) const	Model
getRateRuleByVariable(const std::string &variable)	Model
getReaction(unsigned int n) const	Model
getReaction(unsigned int n)	Model
getReaction(const std::string &sid) const	Model
getReaction(const std::string &sid)	Model
getResourceBiologicalQualifier(std::string resource)	SBase
getResourceModelQualifier(std::string resource)	SBase
getRule(unsigned int n) const	Model
getRule(unsigned int n)	Model
getRule(const std::string &variable) const	Model
getRule(const std::string &variable)	Model
getRuleByVariable(const std::string &variable) const	Model
getRuleByVariable(const std::string &variable)	Model
getSBMLDocument() const	SBase
getSBMLDocument()	SBase
getSBOTerm() const	SBase
getSBOTermAsURL() const	SBase
getSBOTermID() const	SBase
getSpecies(unsigned int n) const	Model
getSpecies(unsigned int n)	Model
getSpecies(const std::string &sid) const	Model
getSpecies(const std::string &sid)	Model
getSpeciesReference(const std::string &sid)	Model
getSpeciesReference(const std::string &sid) const	Model
getSpeciesType(unsigned int n) const	Model
getSpeciesType(unsigned int n)	Model
getSpeciesType(const std::string &sid) const	Model
getSpeciesType(const std::string &sid)	Model
getSubstanceUnits() const	Model
getTimeUnits() const	Model
getTypeCode() const	ModelDefinition	virtual
getUnitDefinition(unsigned int n) const	Model
getUnitDefinition(unsigned int n)	Model
getUnitDefinition(const std::string &sid) const	Model
getUnitDefinition(const std::string &sid)	Model
getURI() const	SBase
getUserData() const	SBase
getVersion() const	SBase
getVolumeUnits() const	Model
hasRequiredElements() const	Model	virtual
hasValidLevelVersionNamespaceCombination()	SBase
isPackageEnabled(const std::string &pkgName) const	SBase
isPackageURIEnabled(const std::string &pkgURI) const	SBase
isPkgEnabled(const std::string &pkgName) const	SBase
isPkgURIEnabled(const std::string &pkgURI) const	SBase
isPopulatedAllElementIdList() const	Model
isPopulatedAllElementMetaIdList() const	Model
isPopulatedListFormulaUnitsData()	Model
isSetAnnotation() const	SBase
isSetAreaUnits() const	Model
isSetConversionFactor() const	Model
isSetExtentUnits() const	Model
isSetId() const	Model	virtual
isSetIdAttribute() const	SBase
isSetLengthUnits() const	Model
isSetMetaId() const	SBase
isSetModelHistory()	SBase
isSetName() const	Model	virtual
isSetNotes() const	SBase
isSetSBOTerm() const	SBase
isSetSubstanceUnits() const	Model
isSetTimeUnits() const	Model
isSetUserData() const	SBase
isSetVolumeUnits() const	Model
matchesRequiredSBMLNamespacesForAddition(const SBase *sb)	SBase
matchesRequiredSBMLNamespacesForAddition(const SBase *sb) const	SBase
matchesSBMLNamespaces(const SBase *sb)	SBase
matchesSBMLNamespaces(const SBase *sb) const	SBase
Model(unsigned int level, unsigned int version)	Model
Model(SBMLNamespaces *sbmlns)	Model
Model(const Model &orig)	Model
ModelDefinition(unsigned int level=CompExtension::getDefaultLevel(), unsigned int version=CompExtension::getDefaultVersion(), unsigned int pkgVersion=CompExtension::getDefaultPackageVersion())	ModelDefinition
ModelDefinition(CompPkgNamespaces *compns)	ModelDefinition
ModelDefinition(const Model &source)	ModelDefinition
operator=(const Model &source)	ModelDefinition
SBase::operator=(const SBase &rhs)	SBase
populateAllElementIdList()	Model
populateAllElementMetaIdList()	Model
populateListFormulaUnitsData()	Model
read(XMLNode &node, XMLErrorSeverityOverride_t flag=LIBSBML_OVERRIDE_DISABLED)	SBase
removeCompartment(unsigned int n)	Model
removeCompartment(const std::string &sid)	Model
removeCompartmentType(unsigned int n)	Model
removeCompartmentType(const std::string &sid)	Model
removeConstraint(unsigned int n)	Model
removeEvent(unsigned int n)	Model
removeEvent(const std::string &sid)	Model
removeFromParentAndDelete()	ModelDefinition	virtual
removeFunctionDefinition(unsigned int n)	Model
removeFunctionDefinition(const std::string &sid)	Model
removeInitialAssignment(unsigned int n)	Model
removeInitialAssignment(const std::string &symbol)	Model
removeParameter(unsigned int n)	Model
removeParameter(const std::string &sid)	Model
removeReaction(unsigned int n)	Model
removeReaction(const std::string &sid)	Model
removeRule(unsigned int n)	Model
removeRule(const std::string &variable)	Model
removeRuleByVariable(const std::string &variable)	Model
removeSpecies(unsigned int n)	Model
removeSpecies(const std::string &sid)	Model
removeSpeciesType(unsigned int n)	Model
removeSpeciesType(const std::string &sid)	Model
removeTopLevelAnnotationElement(const std::string &elementName, const std::string elementURI="", bool removeEmpty=true)	SBase
removeUnitDefinition(unsigned int n)	Model
removeUnitDefinition(const std::string &sid)	Model
renameMetaIdRefs(const std::string &oldid, const std::string &newid)	SBase	virtual
renameSIdRefs(const std::string &oldid, const std::string &newid)	Model	virtual
renameUnitSIdRefs(const std::string &oldid, const std::string &newid)	Model	virtual
replaceTopLevelAnnotationElement(const XMLNode *annotation)	SBase
replaceTopLevelAnnotationElement(const std::string &annotation)	SBase
setAnnotation(const XMLNode *annotation)	Model	virtual
setAnnotation(const std::string &annotation)	Model	virtual
setAreaUnits(const std::string &units)	Model
setConversionFactor(const std::string &units)	Model
setElementText(const std::string &text)	SBase	protectedvirtual
setExtentUnits(const std::string &units)	Model
setId(const std::string &sid)	Model	virtual
setIdAttribute(const std::string &sid)	SBase	virtual
setLengthUnits(const std::string &units)	Model
setMetaId(const std::string &metaid)	SBase
setModelHistory(ModelHistory *history)	SBase
setName(const std::string &name)	Model	virtual
setNamespaces(XMLNamespaces *xmlns)	SBase
setNotes(const XMLNode *notes)	SBase
setNotes(const std::string &notes, bool addXHTMLMarkup=false)	SBase
setSBOTerm(int value)	SBase	virtual
setSBOTerm(const std::string &sboid)	SBase	virtual
setSubstanceUnits(const std::string &units)	Model
setTimeUnits(const std::string &units)	Model
setUserData(void *userData)	SBase
setVolumeUnits(const std::string &units)	Model
toSBML()	SBase
toXMLNode()	SBase
unsetAnnotation()	SBase
unsetAreaUnits()	Model
unsetConversionFactor()	Model
unsetCVTerms()	SBase
unsetExtentUnits()	Model
unsetId()	Model	virtual
unsetIdAttribute()	SBase
unsetLengthUnits()	Model
unsetMetaId()	SBase
unsetModelHistory()	SBase
unsetName()	Model	virtual
unsetNotes()	SBase
unsetSBOTerm()	SBase
unsetSubstanceUnits()	Model
unsetTimeUnits()	Model
unsetUserData()	SBase
unsetVolumeUnits()	Model
~Model()	Model	virtual
~ModelDefinition()	ModelDefinition	virtual
~SBase()	SBase	virtual