| add(CCopasiObject *pObject, const bool &adopt=true) | CCopasiContainer | virtual |
| addDirectDependency(const CCopasiObject *pObject) | CCopasiObject | |
| addMatrixReference(const std::string &name, CType &reference, const unsigned C_INT32 &flag=0) | CCopasiContainer | inlineprotected |
| addObjectReference(const std::string &name, CType &reference, const unsigned C_INT32 &flag=0) | CCopasiContainer | inlineprotected |
| addVectorReference(const std::string &name, CType &reference, const unsigned C_INT32 &flag=0) | CCopasiContainer | inlineprotected |
| allocate() | CMathContainer | private |
| applyInitialValues() | CMathContainer | |
| applyUpdateSequence(const CObjectInterface::UpdateSequence &updateSequence) | CMathContainer | |
| Array enum value | CCopasiObject | protected |
| buildUpdateSequence(const DataObjectSet &objects, const DataObjectSet &uptoDateObjects, const DataObjectSet &context=DataObjectSet()) | CCopasiObject | static |
| CCopasiContainer(const std::string &name, const CCopasiContainer *pParent=NULL, const std::string &type="CN", const unsigned C_INT32 &flag=CCopasiObject::Container) | CCopasiContainer | |
| CCopasiContainer(const CCopasiContainer &src, const CCopasiContainer *pParent=NULL) | CCopasiContainer | |
| CCopasiObject() | CCopasiObject | protected |
| CCopasiObject(const std::string &name, const CCopasiContainer *pParent=NULL, const std::string &type="CN", const unsigned C_INT32 &flag=0) | CCopasiObject | protected |
| CCopasiObject(const CCopasiObject &src, const CCopasiContainer *pParent=NULL) | CCopasiObject | |
| clearDirectDependencies() | CCopasiObject | |
| clearRefresh() | CCopasiObject | |
| CMathContainer() | CMathContainer | private |
| CMathContainer(CModel &model) | CMathContainer | |
| CMathContainer(const CMathContainer &src) | CMathContainer | |
| CObjectInterface() | CObjectInterface | inline |
| compileDiscreteChanges() | CMathContainer | private |
| compileEvents() | CMathContainer | private |
| compileObjects() | CMathContainer | private |
| Container enum value | CCopasiObject | protected |
| copyBranch(const CEvaluationNode *pSrc, const bool &replaceDiscontinuousNodes) | CMathContainer | |
| copyBranch(const CEvaluationNode *pSrc, const CMath::Variables< CEvaluationNode * > &variables, const bool &replaceDiscontinuousNodes) | CMathContainer | |
| createApplyInitialValuesSequence() | CMathContainer | private |
| createDependencyGraphs() | CMathContainer | private |
| createDiscontinuityDataEvent(const CEvaluationNode *pNode) | CMathContainer | private |
| createDiscontinuityEvents() | CMathContainer | private |
| createDiscontinuityEvents(const CEvaluationTree *pTree) | CMathContainer | private |
| createDiscontinuityTriggerInfix(const CEvaluationNode *pNode) | CMathContainer | private |
| createNodeFromObject(const CObjectInterface *pMathObject) | CMathContainer | private |
| createNodeFromValue(const C_FLOAT64 *pDataValue) | CMathContainer | private |
| createSynchronizeInitialValuesSequence() | CMathContainer | private |
| createUpdateSimulationValuesSequence() | CMathContainer | private |
| DataModel enum value | CCopasiObject | protected |
| DataObjectSet typedef | CCopasiObject | |
| DataUpdateSequence typedef | CCopasiObject | |
| dependsOn(DataObjectSet candidates, const DataObjectSet &context=DataObjectSet()) const | CCopasiObject | |
| EmptyList | CCopasiContainer | static |
| fetchInitialState() | CMathContainer | |
| fetchState() | CMathContainer | |
| Flag enum name | CCopasiObject | protected |
| getAllDependencies(DataObjectSet &dependencies, const DataObjectSet &context) const | CCopasiObject | |
| getChildObjectUnits(const CCopasiObject *pObject) const | CCopasiContainer | virtual |
| getCN() const | CMathContainer | virtual |
| getDirectDependencies(const DataObjectSet &context=DataObjectSet()) const | CCopasiObject | virtual |
| getEntityType(const CModelEntity *pEntity) | CMathContainer | privatestatic |
| getInitialState() const | CMathContainer | |
| getInitialState() | CMathContainer | |
| getInitialValuePointer(const C_FLOAT64 *pValue) const | CMathContainer | |
| getKey() const | CCopasiObject | virtual |
| getMathObject(const CObjectInterface *pObject) const | CMathContainer | |
| getMathObject(const C_FLOAT64 *pDataValue) const | CMathContainer | |
| getMathObject(const CCopasiObjectName &cn) const | CMathContainer | |
| getModel() const | CMathContainer | |
| getObject(const CCopasiObjectName &cn) const | CMathContainer | virtual |
| getObjectAncestor(const std::string &type) const | CCopasiObject | |
| getObjectDataModel() | CCopasiObject | |
| getObjectDataModel() const | CCopasiObject | |
| getObjectDisplayName(bool regular=true, bool richtext=false) const | CCopasiObject | virtual |
| getObjectName() const | CCopasiObject | |
| getObjectParent() const | CCopasiObject | |
| getObjects() const | CCopasiContainer | virtual |
| getObjectType() const | CCopasiObject | |
| getPrerequisites() const | CCopasiObject | virtual |
| getRefresh() const | CCopasiObject | virtual |
| getState() const | CMathContainer | |
| getState() | CMathContainer | |
| getStateReduced() const | CMathContainer | |
| getStateReduced() | CMathContainer | |
| getUnits() const | CCopasiContainer | virtual |
| getUpdateMethod() const | CCopasiObject | |
| getValueObject() const | CCopasiContainer | virtual |
| getValuePointer() const | CCopasiObject | virtual |
| getValues() const | CMathContainer | |
| getValues() | CMathContainer | |
| Gui enum value | CCopasiObject | protected |
| hasCircularDependencies(DataObjectSet &candidates, DataObjectSet &verified, const DataObjectSet &context) const | CCopasiObject | |
| hasDependencies(const CCopasiObject *pObject) | CMathContainer | privatestatic |
| hasUpdateMethod() const | CCopasiObject | |
| init() | CMathContainer | private |
| initializeDiscontinuousCreationPointer() | CMathContainer | private |
| initializeEvents(CMath::sPointers &pointers) | CMathContainer | private |
| initializeMathObjects(const std::vector< const CModelEntity * > &entities, const CMath::SimulationType &simulationType, CMath::sPointers &pointers) | CMathContainer | private |
| initializeMathObjects(const std::vector< const CCopasiObject * > ¶meters, CMath::sPointers &p) | CMathContainer | private |
| initializeMathObjects(const CCopasiVector< CReaction > &reactions, CMath::sPointers &p) | CMathContainer | private |
| initializeMathObjects(const CCopasiVector< CMoiety > &moieties, CMath::sPointers &p) | CMathContainer | private |
| initializeObjects(CMath::sPointers &pointers) | CMathContainer | private |
| initializePointers(CMath::sPointers &pointers) | CMathContainer | private |
| initObjects() | CCopasiContainer | protected |
| isArray() const | CCopasiObject | |
| isContainer() const | CCopasiObject | |
| isDataModel() const | CCopasiObject | |
| isMatrix() const | CCopasiObject | |
| isNameVector() const | CCopasiObject | |
| isNonUniqueName() const | CCopasiObject | |
| isPrerequisiteForContext(const CObjectInterface *pObject, const CMath::SimulationContextFlag &context, const CObjectInterface::ObjectSet &changedObjects) const | CCopasiObject | virtual |
| isReference() const | CCopasiObject | |
| isRoot() const | CCopasiObject | |
| isSeparator() const | CCopasiObject | |
| isStaticString() const | CCopasiObject | |
| isValueBool() const | CCopasiObject | |
| isValueDbl() const | CCopasiObject | |
| isValueInt() const | CCopasiObject | |
| isValueInt64() const | CCopasiObject | |
| isValueString() const | CCopasiObject | |
| isVector() const | CCopasiObject | |
| map(CCopasiObject *pDataObject, CMathObject *pMathObject) | CMathContainer | private |
| mApplyInitialValuesSequence | CMathContainer | private |
| mAssignmentCount | CMathContainer | private |
| Matrix enum value | CCopasiObject | protected |
| mCreateDiscontinuousPointer | CMathContainer | private |
| mDataObject2MathObject | CMathContainer | private |
| mDataValue2MathObject | CMathContainer | private |
| mDependentCount | CMathContainer | private |
| mDependentMasses | CMathContainer | private |
| mDiscontinuityEvents | CMathContainer | private |
| mDiscontinuityInfix2Object | CMathContainer | private |
| mDiscontinuous | CMathContainer | private |
| mEventAssignments | CMathContainer | private |
| mEventDelays | CMathContainer | private |
| mEventPriorities | CMathContainer | private |
| mEventRoots | CMathContainer | private |
| mEventRootStates | CMathContainer | private |
| mEvents | CMathContainer | private |
| mEventTargetCount | CMathContainer | private |
| mEventTriggers | CMathContainer | private |
| mExtensiveRates | CMathContainer | private |
| mExtensiveValues | CMathContainer | private |
| mFixedCount | CMathContainer | private |
| mFluxes | CMathContainer | private |
| mIndependentCount | CMathContainer | private |
| mInitialDependencies | CMathContainer | private |
| mInitialEventTriggers | CMathContainer | private |
| mInitialExtensiveRates | CMathContainer | private |
| mInitialExtensiveValues | CMathContainer | private |
| mInitialFluxes | CMathContainer | private |
| mInitialIntensiveRates | CMathContainer | private |
| mInitialIntensiveValues | CMathContainer | private |
| mInitialParticleFluxes | CMathContainer | private |
| mInitialState | CMathContainer | private |
| mInitialStateValueExtensive | CMathContainer | private |
| mInitialStateValueIntensive | CMathContainer | private |
| mInitialTotalMasses | CMathContainer | private |
| mIntensiveRates | CMathContainer | private |
| mIntensiveValues | CMathContainer | private |
| mObjects | CMathContainer | private |
| mODECount | CMathContainer | private |
| ModelEntity enum value | CCopasiObject | protected |
| mParticleFluxes | CMathContainer | private |
| mpAvogadro | CMathContainer | private |
| mpModel | CMathContainer | private |
| mpQuantity2NumberFactor | CMathContainer | private |
| mPropensities | CMathContainer | private |
| mReactions | CMathContainer | private |
| mReducedStateValues | CMathContainer | private |
| mSimulationRequiredValues | CMathContainer | private |
| mSimulationValuesSequence | CMathContainer | private |
| mSimulationValuesSequenceReduced | CMathContainer | private |
| mState | CMathContainer | private |
| mStateReduced | CMathContainer | private |
| mStateValues | CMathContainer | private |
| mSynchronizeInitialValuesSequenceExtensive | CMathContainer | private |
| mSynchronizeInitialValuesSequenceIntensive | CMathContainer | private |
| mTotalMasses | CMathContainer | private |
| mTransientDependencies | CMathContainer | private |
| mTriggerInfix2Event | CMathContainer | private |
| mustBeDeleted(const DataObjectSet &deletedObjects) const | CCopasiObject | virtual |
| mValues | CMathContainer | private |
| NameVector enum value | CCopasiObject | protected |
| NonUniqueName enum value | CCopasiObject | protected |
| objectMap typedef | CCopasiContainer | |
| ObjectSet typedef | CObjectInterface | |
| print(std::ostream *ostream) const | CCopasiObject | virtual |
| pushInitialState() | CMathContainer | |
| pushState() | CMathContainer | |
| Reference enum value | CCopasiObject | protected |
| remove(CCopasiObject *pObject) | CCopasiContainer | virtual |
| removeDirectDependency(const CCopasiObject *pObject) | CCopasiObject | |
| replaceDiscontinuousNode(const CEvaluationNode *pSrc, const std::vector< CEvaluationNode * > &children) | CMathContainer | |
| Root enum value | CCopasiObject | protected |
| Separator enum value | CCopasiObject | protected |
| setDirectDependencies(const DataObjectSet &directDependencies) | CCopasiObject | |
| setInitialState(const CVectorCore< C_FLOAT64 > &initialState) | CMathContainer | |
| setObjectName(const std::string &name) | CCopasiObject | |
| setObjectParent(const CCopasiContainer *pParent) | CCopasiObject | virtual |
| setObjectValue(const C_FLOAT64 &value) | CCopasiObject | |
| setObjectValue(const C_INT32 &value) | CCopasiObject | |
| setObjectValue(const bool &value) | CCopasiObject | |
| setRefresh(CType *pType, void(CType::*method)(void)) | CCopasiObject | inline |
| setRenameHandler(CRenameHandler *rh) | CCopasiObject | inlinestatic |
| setState(const CVectorCore< C_FLOAT64 > &state) | CMathContainer | |
| setStateReduced(const CVectorCore< C_FLOAT64 > &stateReduced) | CMathContainer | |
| setUpdateMethod(CType *pType, void(CType::*method)(const C_FLOAT64 &)) | CCopasiObject | inline |
| setUpdateMethod(CType *pType, void(CType::*method)(const C_INT32 &)) | CCopasiObject | inline |
| setUpdateMethod(CType *pType, void(CType::*method)(const bool &)) | CCopasiObject | inline |
| setValues(const CVectorCore< C_FLOAT64 > &values) | CMathContainer | |
| smpRenameHandler | CCopasiObject | protectedstatic |
| StaticString enum value | CCopasiObject | protected |
| updateInitialValues(const CModelParameter::Framework &framework) | CMathContainer | |
| UpdateSequence typedef | CObjectInterface | |
| updateSimulatedValues(const bool &useMoieties) | CMathContainer | |
| ValueBool enum value | CCopasiObject | protected |
| ValueDbl enum value | CCopasiObject | protected |
| ValueInt enum value | CCopasiObject | protected |
| ValueInt64 enum value | CCopasiObject | protected |
| ValueString enum value | CCopasiObject | protected |
| Vector enum value | CCopasiObject | protected |
| ~CCopasiContainer() | CCopasiContainer | virtual |
| ~CCopasiObject() | CCopasiObject | virtual |
| ~CMathContainer() | CMathContainer | virtual |
| ~CObjectInterface() | CObjectInterface | inlinevirtual |
