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roadrunner
2.6.0
Fast simulator for SBML models
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This is the complete list of members for rr::CompiledModelGenerator, including all inherited members.
| cleanEquation(ASTNode *ast) | rr::CompiledModelGenerator | protectedstatic |
| cleanEquation(const std::string &equation) (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedstatic |
| CompiledModelGenerator() (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| convertCompartmentToC(const std::string &compartmentName)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| convertSpeciesToBc(const std::string &speciesName)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| convertSpeciesToY(const std::string &speciesName)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| convertSymbolToC(const std::string &compartmentName)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| convertSymbolToGP(const std::string ¶meterName)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| convertUserFunctionExpression(const std::string &equation)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| expressionContainsSymbol(ASTNode *ast, const std::string &symbol) (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| expressionContainsSymbol(const std::string &expression, const std::string &symbol) (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| findSymbol(const std::string &varName)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| getInfo() | rr::CompiledModelGenerator | protectedvirtual |
| getSpecies(const std::string &id) (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| initializeL0(int &nrRows, int &nrCols) (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| mComputeAndAssignConsevationLaws (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| mFixAmountCompartments (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| mLibStruct | rr::CompiledModelGenerator | protected |
| mNOM | rr::CompiledModelGenerator | protected |
| ms | rr::CompiledModelGenerator | protected |
| mWarnings (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| numAdditionalRates() (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| readCompartments() (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| readGlobalParameters() (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| readLocalParameters(const int &numReactions, std::vector< int > &localParameterDimensions, int &totalLocalParmeters) (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| reset() (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| substituteEquation(const std::string &reactionName, Scanner &s, CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| substituteTerms(const std::string &reactionName, const std::string &inputEquation, bool bFixAmounts) (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| substituteTerms(const int &numReactions, const std::string &reactionName, const std::string &equation) (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| substituteToken(const std::string &reactionName, bool bFixAmounts, Scanner &s, CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| substituteWords(const std::string &reactionName, bool bFixAmounts, Scanner &s, CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeAccessors(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeClassHeader(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeComputeAllRatesOfChange(CodeBuilder &sb, const int &numIndependentSpecies, const int &numDependentSpecies, ls::DoubleMatrix &L0)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeComputeConservedTotals(CodeBuilder &sb, const int &numFloatingSpecies, const int &numDependentSpecies)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeComputeReactionRates(CodeBuilder &sb, const int &numReactions)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeComputeRules(CodeBuilder &sb, const int &numReactions)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeConvertToAmounts(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeConvertToConcentrations(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeDouble(const double &value, const std::string &format="%G") (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protected |
| writeEvalEvents(CodeBuilder &sb, const int &numEvents, const int &numFloatingSpecies)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeEvalInitialAssignments(CodeBuilder &sb, const int &numReactions)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeEvalModel(CodeBuilder &sb, const int &numReactions, const int &numIndependentSpecies, const int &numFloatingSpecies, const int &numOfRules)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeEventAssignments(CodeBuilder &sb, const int &numReactions, const int &numEvents)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeGetConcentration(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeOutVariables(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeProperties(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeResetEvents(CodeBuilder &sb, const int &numEvents)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeSetBoundaryConditions(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeSetCompartmentVolumes(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeSetConcentration(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeSetInitialConditions(CodeBuilder &sb, const int &numFloatingSpecies)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeSetParameterValues(CodeBuilder &sb, const int &numReactions)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeTestConstraints(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeUpdateDependentSpecies(CodeBuilder &sb, const int &numIndependentSpecies, const int &numDependentSpecies, ls::DoubleMatrix &L0)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| writeUserDefinedFunctions(CodeBuilder &sb)=0 (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedpure virtual |
| ~CompiledModelGenerator() (defined in rr::CompiledModelGenerator) | rr::CompiledModelGenerator | protectedvirtual |
1.9.1