| adaptiveSA enum value | CCopasiMethod | |
| add(CCopasiObject *pObject, const bool &adopt=true) | CCopasiContainer | virtual |
| addDirectDependency(const CCopasiObject *pObject) | CCopasiObject | |
| addGroup(const std::string &name) | CCopasiParameterGroup | |
| 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 |
| addParameter(const CCopasiParameter ¶meter) | CCopasiParameterGroup | |
| addParameter(const std::string &name, const CCopasiParameter::Type type) | CCopasiParameterGroup | |
| addParameter(const std::string &name, const CCopasiParameter::Type type, const CType &value) | CCopasiParameterGroup | inline |
| addParameter(CCopasiParameter *pParameter) | CCopasiParameterGroup | |
| addVectorReference(const std::string &name, CType &reference, const unsigned C_INT32 &flag=0) | CCopasiContainer | inlineprotected |
| Array enum value | CCopasiObject | protected |
| assertGroup(const std::string &name) | CCopasiParameterGroup | |
| assertParameter(const std::string &name, const CCopasiParameter::Type type, const CType &defaultValue) | CCopasiParameterGroup | inline |
| basisRefinement(C_INT &N, C_INT &M, CMatrix< C_FLOAT64 > &ALA, CMatrix< C_FLOAT64 > &TAU, CMatrix< C_FLOAT64 > &A, CMatrix< C_FLOAT64 > &B, CMatrix< C_FLOAT64 > &A0, CMatrix< C_FLOAT64 > &B0) | CCSPMethod | |
| beginIndex() const | CCopasiParameterGroup | |
| beginName() const | CCopasiParameterGroup | |
| BOOL enum value | CCopasiParameter | |
| buildUpdateSequence(const DataObjectSet &objects, const DataObjectSet &uptoDateObjects, const DataObjectSet &context=DataObjectSet()) | CCopasiObject | static |
| calculateDerivatives(C_FLOAT64 *X1, C_FLOAT64 *Y1) | CTSSAMethod | protected |
| calculateDerivativesX(C_FLOAT64 *X1, C_FLOAT64 *Y1) | CTSSAMethod | protected |
| calculateJacobian(C_INT &n, CVector< C_FLOAT64 > &y, CMatrix< C_FLOAT64 > &J) | CCSPMethod | |
| 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 | |
| CCopasiMethod(const CCopasiTask::Type &taskType, const SubType &subType, const CCopasiContainer *pParent=NULL) | CCopasiMethod | protected |
| CCopasiMethod(const CCopasiMethod &src, const CCopasiContainer *pParent=NULL) | CCopasiMethod | |
| 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 | |
| CCopasiParameter(const CCopasiParameter &src, const CCopasiContainer *pParent=NULL) | CCopasiParameter | |
| CCopasiParameter(const std::string &name, const Type &type, const void *pValue=NULL, const CCopasiContainer *pParent=NULL, const std::string &objectType="Parameter") | CCopasiParameter | |
| CCopasiParameterGroup() | CCopasiParameterGroup | protected |
| CCopasiParameterGroup(const CCopasiParameterGroup &src, const CCopasiContainer *pParent=NULL) | CCopasiParameterGroup | |
| CCopasiParameterGroup(const std::string &name, const CCopasiContainer *pParent=NULL, const std::string &objectType="ParameterGroup") | CCopasiParameterGroup | |
| CCSPMethod(const CCopasiContainer *pParent=NULL) | CCSPMethod | private |
| CCSPMethod(const CCSPMethod &src, const CCopasiContainer *pParent=NULL) | CCSPMethod | |
| clear() | CCopasiParameterGroup | |
| clearDirectDependencies() | CCopasiObject | |
| clearRefresh() | CCopasiObject | |
| CN enum value | CCopasiParameter | |
| CObjectInterface() | CObjectInterface | inline |
| Container enum value | CCopasiObject | protected |
| CoranaWalk enum value | CCopasiMethod | |
| createAnnotationsM() | CCSPMethod | |
| createMethod(CCopasiMethod::SubType subType=CCopasiMethod::unset) | CTSSAMethod | static |
| crossSectionMethod enum value | CCopasiMethod | |
| CSPImportanceIndex(C_INT &N, C_FLOAT64 &tauM1, CMatrix< C_FLOAT64 > &Q) | CCSPMethod | |
| CSPOutput(C_INT &N, C_INT &M, C_INT &R) | CCSPMethod | |
| CSPParticipationIndex(C_INT &N, C_INT &M, C_FLOAT64 &tauM1, CMatrix< C_FLOAT64 > &B0) | CCSPMethod | |
| CSPradicalPointer(C_INT &N, C_INT &M, CMatrix< C_FLOAT64 > &A, CMatrix< C_FLOAT64 > &B) | CCSPMethod | |
| cspstep(const double &deltaT, C_INT &n, C_INT &m, CMatrix< C_FLOAT64 > &A, CMatrix< C_FLOAT64 > &B) | CCSPMethod | |
| CTSSAMethod(const CCopasiMethod::SubType &subType, const CCopasiContainer *pParent=NULL) | CTSSAMethod | protected |
| CTSSAMethod(const CTSSAMethod &src, const CCopasiContainer *pParent=NULL) | CTSSAMethod | |
| CTSSAMethod::createMethod(CCopasiMethod::SubType subType) | CCSPMethod | friend |
| DataModel enum value | CCopasiObject | protected |
| DataObjectSet typedef | CCopasiObject | |
| DataUpdateSequence typedef | CCopasiObject | |
| dependsOn(DataObjectSet candidates, const DataObjectSet &context=DataObjectSet()) const | CCopasiObject | |
| deterministic enum value | CCopasiMethod | |
| DifferentialEvolution enum value | CCopasiMethod | |
| directMethod enum value | CCopasiMethod | |
| DOUBLE enum value | CCopasiParameter | |
| DsaLsodar enum value | CCopasiMethod | |
| EFMAlgorithm enum value | CCopasiMethod | |
| EFMBitPatternAlgorithm enum value | CCopasiMethod | |
| EFMBitPatternTreeAlgorithm enum value | CCopasiMethod | |
| elevateChildren() | CTSSAMethod | protectedvirtual |
| EmptyList | CCopasiContainer | static |
| emptyOutputData(C_INT &N, C_INT &M, C_INT &R) | CCSPMethod | |
| emptyVectors() | CCSPMethod | |
| endIndex() const | CCopasiParameterGroup | |
| endName() const | CCopasiParameterGroup | |
| EvalF(const C_INT *n, const C_FLOAT64 *t, const C_FLOAT64 *y, C_FLOAT64 *ydot) | CTSSAMethod | protectedstatic |
| evalF(const C_FLOAT64 *t, const C_FLOAT64 *y, C_FLOAT64 *ydot) | CTSSAMethod | protected |
| EvolutionaryProgram enum value | CCopasiMethod | |
| EXPRESSION enum value | CCopasiParameter | |
| FILE enum value | CCopasiParameter | |
| findCandidatesNumber(C_INT &n, C_INT &k, CVector< C_FLOAT64 > &tsc, C_INT &info) | CCSPMethod | |
| findTimeScaleSeparation(C_INT &n, C_INT &k, CVector< C_FLOAT64 > &tsc, C_INT &info) | CCSPMethod | |
| Flag enum name | CCopasiObject | protected |
| GeneticAlgorithm enum value | CCopasiMethod | |
| GeneticAlgorithmSR enum value | CCopasiMethod | |
| getAllDependencies(DataObjectSet &dependencies, const DataObjectSet &context) const | CCopasiObject | |
| getAmplitudeAnn() const | CCSPMethod | inline |
| getChildObjectUnits(const CCopasiObject *pObject) const | CCopasiContainer | virtual |
| getCN() const | CCopasiParameter | virtual |
| getCurrentStep() const | CTSSAMethod | |
| getDirectDependencies(const DataObjectSet &context=DataObjectSet()) const | CCopasiObject | virtual |
| getFastParticipationIndexAnn() const | CCSPMethod | inline |
| getFastReactionPointerAnn() const | CCSPMethod | inline |
| getFastReactionPointerNormedAnn() const | CCSPMethod | inline |
| getGroup(const std::string &name) | CCopasiParameterGroup | |
| getGroup(const std::string &name) const | CCopasiParameterGroup | |
| getGroup(const size_t &index) | CCopasiParameterGroup | |
| getGroup(const size_t &index) const | CCopasiParameterGroup | |
| getImportanceIndexAnn() const | CCSPMethod | inline |
| getImportanceIndexNormedRowAnn() const | CCSPMethod | inline |
| getIndex(const std::string &name) const | CCopasiParameterGroup | |
| getKey(const std::string &name) const | CCopasiParameterGroup | |
| getKey(const size_t &index) const | CCopasiParameterGroup | |
| CCopasiParameter::getKey() const | CCopasiParameter | virtual |
| getName(const size_t &index) const | CCopasiParameterGroup | virtual |
| getObject(const CCopasiObjectName &cn) const | CCopasiParameterGroup | virtual |
| getObjectAncestor(const std::string &type) const | CCopasiObject | |
| getObjectDataModel() | CCopasiObject | |
| getObjectDataModel() const | CCopasiObject | |
| getObjectDisplayName(bool regular=true, bool richtext=false) const | CCopasiParameter | virtual |
| getObjectName() const | CCopasiObject | |
| getObjectParent() const | CCopasiObject | |
| getObjects() const | CCopasiContainer | virtual |
| getObjectType() const | CCopasiObject | |
| getParameter(const std::string &name) | CCopasiParameterGroup | |
| getParameter(const std::string &name) const | CCopasiParameterGroup | |
| getParameter(const size_t &index) | CCopasiParameterGroup | |
| getParameter(const size_t &index) const | CCopasiParameterGroup | |
| getParticipationIndexAnn() const | CCSPMethod | inline |
| getParticipationIndexNormedColumnAnn() const | CCSPMethod | inline |
| getParticipationIndexNormedRowAnn() const | CCSPMethod | inline |
| getPrerequisites() const | CCopasiObject | virtual |
| getRadicalPointerAnn() const | CCSPMethod | inline |
| getRefresh() const | CCopasiObject | virtual |
| getSlowParticipationIndexAnn() const | CCSPMethod | inline |
| getSubType() const | CCopasiMethod | |
| getTable(std::string name) | CTSSAMethod | inline |
| getTableName() const | CTSSAMethod | inline |
| getType() const | CCopasiMethod | |
| CCopasiParameterGroup::getType(const std::string &name) const | CCopasiParameterGroup | |
| CCopasiParameterGroup::getType(const size_t &index) const | CCopasiParameterGroup | |
| getUniqueParameterName(const CCopasiParameter *pParameter) const | CCopasiParameterGroup | |
| getUnits() const | CCopasiContainer | virtual |
| getUpdateMethod() const | CCopasiObject | |
| getValue(const std::string &name) const | CCopasiParameterGroup | |
| getValue(const size_t &index) const | CCopasiParameterGroup | |
| getValue(const std::string &name) | CCopasiParameterGroup | |
| getValue(const size_t &index) | CCopasiParameterGroup | |
| CCopasiParameter::getValue() const | CCopasiParameter | |
| CCopasiParameter::getValue() | CCopasiParameter | |
| getValueObject() const | CCopasiContainer | virtual |
| getValuePointer() const | CCopasiParameter | virtual |
| getValueReference() const | CCopasiParameter | |
| getVec_TimeScale(int step) | CTSSAMethod | |
| GROUP enum value | CCopasiParameter | |
| Gui enum value | CCopasiObject | protected |
| hasCircularDependencies(DataObjectSet &candidates, DataObjectSet &verified, const DataObjectSet &context) const | CCopasiObject | |
| hasUpdateMethod() const | CCopasiObject | |
| HookeJeeves enum value | CCopasiMethod | |
| Householder enum value | CCopasiMethod | |
| hybrid enum value | CCopasiMethod | |
| HybridGASA enum value | CCopasiMethod | |
| hybridLSODA enum value | CCopasiMethod | |
| hybridODE45 enum value | CCopasiMethod | |
| index_iterator typedef | CCopasiParameterGroup | |
| initializeAtol() | CTSSAMethod | protected |
| initializeIntegrationsParameter() | CTSSAMethod | protected |
| initializeParameter() | CCSPMethod | virtual |
| initObjects() | CCopasiContainer | protected |
| INT enum value | CCopasiParameter | |
| integrationMethodStart(const CState *initialState) | CTSSAMethod | protected |
| integrationStep(const double &deltaT) | CTSSAMethod | protected |
| INVALID enum value | CCopasiParameter | |
| isArray() const | CCopasiObject | |
| isBlockDiagonal(C_INT &N, C_INT &M, CMatrix< C_FLOAT64 > &ALA, C_FLOAT64 SMALL) | CCSPMethod | |
| 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 | |
| isValidProblem(const CCopasiProblem *pProblem) | CTSSAMethod | virtual |
| isValidValue(const C_FLOAT64 &value) const | CCopasiParameter | |
| isValidValue(const C_INT32 &value) const | CCopasiParameter | |
| isValidValue(const unsigned C_INT32 &value) const | CCopasiParameter | |
| isValidValue(const bool &value) const | CCopasiParameter | |
| isValidValue(const std::string &value) const | CCopasiParameter | |
| isValidValue(const CCopasiObjectName &value) const | CCopasiParameter | |
| isValidValue(const std::vector< CCopasiParameter * > &value) const | CCopasiParameter | |
| isValueBool() const | CCopasiObject | |
| isValueDbl() const | CCopasiObject | |
| isValueInt() const | CCopasiObject | |
| isValueInt64() const | CCopasiObject | |
| isValueString() const | CCopasiObject | |
| isVector() const | CCopasiObject | |
| KEY enum value | CCopasiParameter | |
| LevenbergMarquardt enum value | CCopasiMethod | |
| linearNoiseApproximation enum value | CCopasiMethod | |
| load(CReadConfig &configBuffer, CReadConfig::Mode mode=CReadConfig::SEARCH) | CCopasiMethod | virtual |
| LSODAR enum value | CCopasiMethod | |
| lyapWolf enum value | CCopasiMethod | |
| mAerror | CCSPMethod | |
| mAmplitude | CCSPMethod | |
| mAmplitudeTab | CCSPMethod | |
| map_index(C_FLOAT64 *eval_r, C_INT *index, const C_INT &dim) | CTSSAMethod | protected |
| map_index_desc(C_FLOAT64 *eval_r, C_INT *index, const C_INT &dim) | CTSSAMethod | protected |
| mapTableToName | CTSSAMethod | |
| mat_anal_fast_space(C_INT &slow) | CTSSAMethod | protected |
| mat_anal_fast_space_thomas(C_INT &slow) | CTSSAMethod | protected |
| mat_anal_metab(C_INT &slow) | CTSSAMethod | protected |
| mat_anal_mod(C_INT &slow) | CTSSAMethod | protected |
| mat_anal_mod_space(C_INT &slow) | CTSSAMethod | protected |
| mAtol | CTSSAMethod | protected |
| Matrix enum value | CCopasiObject | protected |
| mB | CCSPMethod | |
| mcaMethodReder enum value | CCopasiMethod | |
| mCfast | CTSSAMethod | protected |
| mCSPbasis | CCSPMethod | |
| mCurrentStep | CTSSAMethod | protected |
| mCurrentTime | CTSSAMethod | protected |
| mData | CTSSAMethod | protected |
| mDtol | CTSSAMethod | protected |
| mDWork | CTSSAMethod | protected |
| mEps | CCSPMethod | |
| mEPS | CTSSAMethod | protected |
| mErrorMsg | CTSSAMethod | protected |
| mFastParticipationIndex | CCSPMethod | |
| mFastParticipationIndexTab | CCSPMethod | |
| mFastReactionPointer | CCSPMethod | |
| mFastReactionPointerNormed | CCSPMethod | |
| mFastReactionPointerNormedTab | CCSPMethod | |
| mFastReactionPointerTab | CCSPMethod | |
| mG | CCSPMethod | |
| mI | CCSPMethod | |
| mImportanceIndex | CCSPMethod | |
| mImportanceIndexNormedRow | CCSPMethod | |
| mImportanceIndexNormedRowTab | CCSPMethod | |
| mImportanceIndexTab | CCSPMethod | |
| mIter | CCSPMethod | |
| mIWork | CTSSAMethod | protected |
| mJacobian | CTSSAMethod | protected |
| mJacobian_initial | CTSSAMethod | protected |
| mJType | CTSSAMethod | protected |
| mKey | CCopasiParameter | protected |
| mLSODA | CTSSAMethod | protected |
| mLsodaStatus | CTSSAMethod | protected |
| mObjects | CCopasiContainer | protected |
| ModelEntity enum value | CCopasiObject | protected |
| modesAmplitude(C_INT &N, C_INT &M, CVector< C_FLOAT64 > &g, CMatrix< C_FLOAT64 > &B, CMatrix< C_FLOAT64 > &F) | CCSPMethod | |
| modesAreExhausted(C_INT &N, C_INT &M, C_FLOAT64 &tauM, C_FLOAT64 &tauM1, CVector< C_FLOAT64 > &g, CMatrix< C_FLOAT64 > &A, CMatrix< C_FLOAT64 > &B, CMatrix< C_FLOAT64 > &F) | CCSPMethod | |
| mParticipationIndex | CCSPMethod | |
| mParticipationIndexNormedColumn | CCSPMethod | |
| mParticipationIndexNormedColumnTab | CCSPMethod | |
| mParticipationIndexNormedRow | CCSPMethod | |
| mParticipationIndexNormedRowTab | CCSPMethod | |
| mParticipationIndexTab | CCSPMethod | |
| mpCallBack | CCopasiMethod | protected |
| mpCurrentState | CTSSAMethod | protected |
| mpModel | CTSSAMethod | protected |
| mpProblem | CTSSAMethod | protected |
| mpState | CTSSAMethod | protected |
| mpValueReference | CCopasiParameter | mutableprotected |
| mQ | CTSSAMethod | protected |
| mQ_desc | CTSSAMethod | protected |
| mQz | CTSSAMethod | protected |
| mR | CTSSAMethod | protected |
| mR_desc | CTSSAMethod | protected |
| mRadicalPointer | CCSPMethod | |
| mRadicalPointerTab | CCSPMethod | |
| mReducedModel | CTSSAMethod | protected |
| mRerror | CCSPMethod | |
| mRtol | CTSSAMethod | protected |
| mSetVectors | CCSPMethod | |
| mSize | CCopasiParameter | protected |
| mSlow | CTSSAMethod | protected |
| mSlowParticipationIndex | CCSPMethod | |
| mSlowParticipationIndexTab | CCSPMethod | |
| mState | CTSSAMethod | protected |
| mTd | CTSSAMethod | protected |
| mTd_save | CTSSAMethod | protected |
| mTdInverse | CTSSAMethod | protected |
| mTdInverse_save | CTSSAMethod | protected |
| mTime | CTSSAMethod | protected |
| mTsc | CCSPMethod | |
| mTStep | CCSPMethod | |
| mustBeDeleted(const DataObjectSet &deletedObjects) const | CCopasiObject | virtual |
| mValue | CCopasiParameter | protected |
| mVec_mAmplitude | CCSPMethod | |
| mVec_mFastParticipationIndex | CCSPMethod | |
| mVec_mFastReactionPointer | CCSPMethod | |
| mVec_mFastReactionPointerNormed | CCSPMethod | |
| mVec_mImportanceIndex | CCSPMethod | |
| mVec_mImportanceIndexNormedRow | CCSPMethod | |
| mVec_mParticipationIndex | CCSPMethod | |
| mVec_mParticipationIndexNormedColumn | CCSPMethod | |
| mVec_mParticipationIndexNormedRow | CCSPMethod | |
| mVec_mRadicalPointer | CCSPMethod | |
| mVec_mSlowParticipationIndex | CCSPMethod | |
| mVec_SlowModes | CTSSAMethod | protected |
| mVec_TimeScale | CTSSAMethod | protected |
| mVfast_space | CTSSAMethod | protected |
| mVslow | CTSSAMethod | protected |
| mVslow_metab | CTSSAMethod | protected |
| mVslow_space | CTSSAMethod | protected |
| mY | CTSSAMethod | protected |
| mY_cons | CTSSAMethod | protected |
| mY_initial | CTSSAMethod | protected |
| mYdot | CTSSAMethod | protected |
| mYerror | CCSPMethod | |
| name_iterator typedef | CCopasiParameterGroup | |
| NameVector enum value | CCopasiObject | protected |
| NelderMead enum value | CCopasiMethod | |
| Newton enum value | CCopasiMethod | |
| NonUniqueName enum value | CCopasiObject | protected |
| objectMap typedef | CCopasiContainer | |
| ObjectSet typedef | CObjectInterface | |
| operator=(const CCopasiParameterGroup &rhs) | CCopasiParameterGroup | |
| CCopasiParameter::operator=(const CCopasiParameter &rhs) | CCopasiParameter | |
| orthog(C_INT &number1, C_INT &number2) | CTSSAMethod | protected |
| pAmplitudeAnn | CCSPMethod | |
| parameterGroup typedef | CCopasiParameterGroup | |
| ParticleSwarm enum value | CCopasiMethod | |
| perturbateA(C_INT &n, CMatrix< C_FLOAT64 > &A, C_FLOAT64 delta) | CCSPMethod | |
| pFastParticipationIndexAnn | CCSPMethod | |
| pFastReactionPointerAnn | CCSPMethod | |
| pFastReactionPointerNormedAnn | CCSPMethod | |
| pImportanceIndexAnn | CCSPMethod | |
| pImportanceIndexNormedRowAnn | CCSPMethod | |
| pParticipationIndexAnn | CCSPMethod | |
| pParticipationIndexNormedColumnAnn | CCSPMethod | |
| pParticipationIndexNormedRowAnn | CCSPMethod | |
| pRadicalPointerAnn | CCSPMethod | |
| Praxis enum value | CCopasiMethod | |
| predifineAnnotation() | CCSPMethod | virtual |
| print(std::ostream *ostream) const | CCopasiMethod | virtual |
| printResult(std::ostream *ostream) const | CCSPMethod | virtual |
| pSlowParticipationIndexAnn | CCSPMethod | |
| pTmp1 | CCSPMethod | |
| pTmp2 | CCSPMethod | |
| pTmp3 | CCSPMethod | |
| pTmp3Normed | CCSPMethod | |
| pTmp4 | CCSPMethod | |
| pTmp4Fast | CCSPMethod | |
| pTmp4NormedColumn | CCSPMethod | |
| pTmp4NormedRow | CCSPMethod | |
| pTmp4Slow | CCSPMethod | |
| pTmp5 | CCSPMethod | |
| pTmp5NormedRow | CCSPMethod | |
| RandomSearch enum value | CCopasiMethod | |
| RandomSearchMaster enum value | CCopasiMethod | |
| Reference enum value | CCopasiObject | protected |
| remove(CCopasiObject *pObject) | CCopasiContainer | virtual |
| removeDirectDependency(const CCopasiObject *pObject) | CCopasiObject | |
| removeParameter(const std::string &name) | CCopasiParameterGroup | |
| removeParameter(const size_t &index) | CCopasiParameterGroup | |
| returnCurrentTime(int step) | CTSSAMethod | |
| Root enum value | CCopasiObject | protected |
| scanMethod enum value | CCopasiMethod | |
| ScatterSearch enum value | CCopasiMethod | |
| schur(C_INT &info) | CTSSAMethod | protected |
| schur_desc(C_INT &info) | CTSSAMethod | protected |
| sensMethod enum value | CCopasiMethod | |
| Separator enum value | CCopasiObject | protected |
| setAnnotationM(size_t step) | CCSPMethod | virtual |
| setCallBack(CProcessReport *pCallBack) | CCopasiMethod | virtual |
| setCurrentState(CState *currentState) | CTSSAMethod | |
| setDirectDependencies(const DataObjectSet &directDependencies) | CCopasiObject | |
| setModel(CModel *model) | CTSSAMethod | |
| 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 | |
| setProblem(CTSSAProblem *problem) | CTSSAMethod | |
| setRefresh(CType *pType, void(CType::*method)(void)) | CCopasiObject | inline |
| setRenameHandler(CRenameHandler *rh) | CCopasiObject | inlinestatic |
| 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 |
| setValue(const std::string &name, const CType &value) | CCopasiParameterGroup | inline |
| setValue(const size_t &index, const CType &value) | CCopasiParameterGroup | inline |
| CCopasiParameter::setValue(const CType &value) | CCopasiParameter | inline |
| CCopasiParameter::setValue(const std::vector< CCopasiParameter * > &value) | CCopasiParameter | |
| setVectors(int fast) | CCSPMethod | |
| setVectorsToNaN() | CCSPMethod | |
| SimulatedAnnealing enum value | CCopasiMethod | |
| size() const | CCopasiParameterGroup | |
| smadd(CMatrix< C_FLOAT64 > &A, CMatrix< C_FLOAT64 > &B, CMatrix< C_FLOAT64 > &C, C_INT &n1, C_INT &n2) | CCSPMethod | |
| sminverse(C_INT &n, CMatrix< C_FLOAT64 > &A, CMatrix< C_FLOAT64 > &B) | CCSPMethod | |
| smmult(CMatrix< C_FLOAT64 > &A, CMatrix< C_FLOAT64 > &B, CMatrix< C_FLOAT64 > &C, C_INT &n1, C_INT &n2, C_INT &n3) | CCSPMethod | |
| smnorm(C_INT &n, CMatrix< C_FLOAT64 > &A, CMatrix< C_FLOAT64 > &B, C_INT &n1) | CCSPMethod | |
| smpRenameHandler | CCopasiObject | protectedstatic |
| smsubst(CMatrix< C_FLOAT64 > &A, CMatrix< C_FLOAT64 > &B, CMatrix< C_FLOAT64 > &C, C_INT &n1, C_INT &n2) | CCSPMethod | |
| SRES enum value | CCopasiMethod | |
| start(const CState *initialState) | CCSPMethod | virtual |
| StaticString enum value | CCopasiObject | protected |
| Statistics enum value | CCopasiMethod | |
| SteepestDescent enum value | CCopasiMethod | |
| step(const double &deltaT) | CCSPMethod | virtual |
| stochastic enum value | CCopasiMethod | |
| STRING enum value | CCopasiParameter | |
| SubType enum name | CCopasiMethod | |
| SubTypeName | CCopasiMethod | static |
| swap(const size_t &iFrom, const size_t &iTo) | CCopasiParameterGroup | |
| swap(index_iterator &from, index_iterator &to) | CCopasiParameterGroup | |
| sylvester(C_INT slow, C_INT &info) | CTSSAMethod | protected |
| tableNames | CTSSAMethod | |
| tauLeap enum value | CCopasiMethod | |
| TruncatedNewton enum value | CCopasiMethod | |
| tssCSP enum value | CCopasiMethod | |
| tssILDM enum value | CCopasiMethod | |
| tssILDMModified enum value | CCopasiMethod | |
| Type enum name | CCopasiParameter | |
| TypeName | CCopasiParameter | static |
| UDOUBLE enum value | CCopasiParameter | |
| UINT enum value | CCopasiParameter | |
| unset enum value | CCopasiMethod | |
| update_nid(C_INT *index, C_INT *nid, const C_INT &dim) | CTSSAMethod | protected |
| update_pid(C_INT *index, C_INT *pid, const C_INT &dim) | CTSSAMethod | protected |
| UpdateSequence typedef | CObjectInterface | |
| 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 |
| XMLSubType | CCopasiMethod | static |
| XMLType | CCopasiParameter | static |
| yCorrection(C_INT &N, C_INT &M, CVector< C_FLOAT64 > &y, CMatrix< C_FLOAT64 > &TAUM, CMatrix< C_FLOAT64 > &F, CMatrix< C_FLOAT64 > &A) | CCSPMethod | |
| ~CCopasiContainer() | CCopasiContainer | virtual |
| ~CCopasiMethod() | CCopasiMethod | virtual |
| ~CCopasiObject() | CCopasiObject | virtual |
| ~CCopasiParameter() | CCopasiParameter | virtual |
| ~CCopasiParameterGroup() | CCopasiParameterGroup | virtual |
| ~CCSPMethod() | CCSPMethod | |
| ~CObjectInterface() | CObjectInterface | inlinevirtual |
| ~CTSSAMethod() | CTSSAMethod | |
